It looks like the issue may be with with how Stored Procedures are executed under Java Persistence API (JPA), but I can’t narrow it down.
I was able to verify that the JDBC URL is being passed correctly to the PostgreSQL JDBC driver and it is aware of the escapeSyntaxCallMode property being passed.
I appears that when I declare a stored procedure with NO parameters, the JPA architecture thinks the stored procedure is a function and executes it as a SELECT query.
However, if I declare a stored procedure with one in parameter it recognizes it as a call that has a stored procedure associated with it but for some reason still thinks it is a SELECT query and generates the following runtime error and stack trace:
SQLException: Connection is closed
java.sql.SQLException: Connection is closed
	at com.zaxxer.hikari.pool.ProxyConnection$ClosedConnection.lambda$getClosedConnection$0(ProxyConnection.java:515)
	at jdk.proxy3/jdk.proxy3.$Proxy165.rollback(Unknown Source)
	at com.zaxxer.hikari.pool.ProxyConnection.rollback(ProxyConnection.java:396)
	at com.zaxxer.hikari.pool.HikariProxyConnection.rollback(HikariProxyConnection.java)
	at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.basicRollbackTransaction(DatabaseAccessor.java:1791)
	at org.eclipse.persistence.internal.databaseaccess.DatasourceAccessor.rollbackTransaction(DatasourceAccessor.java:692)
	at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.rollbackTransaction(DatabaseAccessor.java:1781)
	at org.eclipse.persistence.internal.sessions.AbstractSession.basicRollbackTransaction(AbstractSession.java:831)
	at org.eclipse.persistence.sessions.server.ClientSession.basicRollbackTransaction(ClientSession.java:211)
	at org.eclipse.persistence.internal.sessions.AbstractSession.rollbackTransaction(AbstractSession.java:3983)
	at org.eclipse.persistence.internal.sessions.UnitOfWorkImpl.rollbackTransaction(UnitOfWorkImpl.java:4869)
	at org.eclipse.persistence.internal.sessions.RepeatableWriteUnitOfWork.rollbackTransaction(RepeatableWriteUnitOfWork.java:534)
	at org.eclipse.persistence.internal.sessions.UnitOfWorkImpl.release(UnitOfWorkImpl.java:4669)
	at org.eclipse.persistence.internal.jpa.transaction.EntityTransactionImpl.rollback(EntityTransactionImpl.java:189)
	at org.springframework.orm.jpa.JpaTransactionManager.doRollback(JpaTransactionManager.java:589)
	at io.jmix.data.impl.JmixTransactionManager.doRollback(JmixTransactionManager.java:66)
	at org.springframework.transaction.support.AbstractPlatformTransactionManager.processRollback(AbstractPlatformTransactionManager.java:835)
	at org.springframework.transaction.support.AbstractPlatformTransactionManager.rollback(AbstractPlatformTransactionManager.java:809)
	at org.springframework.transaction.interceptor.TransactionAspectSupport.completeTransactionAfterThrowing(TransactionAspectSupport.java:672)
	at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:392)
	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:119)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)
	at org.springframework.dao.support.PersistenceExceptionTranslationInterceptor.invoke(PersistenceExceptionTranslationInterceptor.java:137)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)
	at org.springframework.data.repository.core.support.SurroundingTransactionDetectorMethodInterceptor.invoke(SurroundingTransactionDetectorMethodInterceptor.java:61)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)
	at org.springframework.data.jpa.repository.support.CrudMethodMetadataPostProcessor$CrudMethodMetadataPopulatingMethodInterceptor.invoke(CrudMethodMetadataPostProcessor.java:145)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)
	at org.springframework.aop.interceptor.ExposeInvocationInterceptor.invoke(ExposeInvocationInterceptor.java:97)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)
	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:215)
	at jdk.proxy2/jdk.proxy2.$Proxy205.execGenNodePrUpd2(Unknown Source)
	at ca.ampautomation.ampata.screen.gennode.FinTxferBrowse2.onUpdateAllRowAllBackEndCalcBtnClick(FinTxferBrowse2.java:620)
	at io.jmix.core.common.event.EventHub.publish(EventHub.java:170)
	at io.jmix.ui.component.impl.AbstractComponent.publish(AbstractComponent.java:85)
	at io.jmix.ui.component.impl.ButtonImpl.buttonClicked(ButtonImpl.java:78)
	at io.jmix.ui.widget.JmixButton.fireClick(JmixButton.java:77)
	at com.vaadin.ui.Button$1.click(Button.java:57)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:568)
	at com.vaadin.server.ServerRpcManager.applyInvocation(ServerRpcManager.java:153)
	at com.vaadin.server.ServerRpcManager.applyInvocation(ServerRpcManager.java:115)
	at com.vaadin.server.communication.ServerRpcHandler.handleInvocation(ServerRpcHandler.java:442)
	at com.vaadin.server.communication.ServerRpcHandler.handleInvocations(ServerRpcHandler.java:407)
	at com.vaadin.server.communication.ServerRpcHandler.handleRpc(ServerRpcHandler.java:275)
	at com.vaadin.server.communication.UidlRequestHandler.synchronizedHandleRequest(UidlRequestHandler.java:83)
	at com.vaadin.server.SynchronizedRequestHandler.handleRequest(SynchronizedRequestHandler.java:40)
	at com.vaadin.server.VaadinService.handleRequest(VaadinService.java:1636)
	at com.vaadin.server.VaadinServlet.service(VaadinServlet.java:465)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:750)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:227)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:327)
	at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:115)
	at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:81)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:122)
	at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:116)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:126)
	at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:81)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:109)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.authentication.rememberme.RememberMeAuthenticationFilter.doFilter(RememberMeAuthenticationFilter.java:102)
	at org.springframework.security.web.authentication.rememberme.RememberMeAuthenticationFilter.doFilter(RememberMeAuthenticationFilter.java:93)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:149)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:147)
	at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:125)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:103)
	at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:89)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.header.HeaderWriterFilter.doHeadersAfter(HeaderWriterFilter.java:90)
	at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:75)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:110)
	at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:80)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:55)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
	at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:211)
	at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:183)
	at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:354)
	at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:267)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:93)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:197)
	at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:97)
	at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:541)
	at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:135)
	at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92)
	at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:78)
	at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:360)
	at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:399)
	at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:65)
	at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:889)
	at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1743)
	at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
	at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191)
	at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659)
	at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
	at java.base/java.lang.Thread.run(Thread.java:833)
So as a workaround I am executing a native query using EntityManager through 2 classes: GenNodeRepositoryCustom.java
package ca.ampautomation.ampata.entity;
public interface GenNodeRepositoryCustom {
    void execGenNodePrUpdNative();
    void execFinTxferPrUpdNative();
}
GenNodeRepositoryCustomImpl.java
package ca.ampautomation.ampata.entity;
import org.springframework.transaction.annotation.Transactional;
import javax.persistence.EntityManager;
import javax.persistence.PersistenceContext;
public class GenNodeRepositoryCustomImpl implements GenNodeRepositoryCustom {
    @PersistenceContext
    private EntityManager em;
    @Override
    @Transactional
    public void execGenNodePrUpdNative(){
        this.em.createNativeQuery("call Gen_Node_Pr_Upd()").executeUpdate();
    }
    @Override
    @Transactional
    public void execFinTxferPrUpdNative(){
        this.em.createNativeQuery("call Fin_Txfer_Pr_Upd()").executeUpdate();
    }
}
For now I am using this workaround and can be found in Ampata main branch
https://github.com/AmpAutomation/Ampata/tree/main