We have been running stable with R11.3 SP5 SysAgent with T6BI004 ( Build 41) from August 2016 with JCo 3.0.15 .
Agent , Plug-in debug could be enabled and try to run on RSLG0000 report with SAP_TODAY variant in your LE / additional production agent to isolate the issue
If the delay is occurring on SAP end , you might need to review the SAP connectivity . Are we using Load balancing option ? if yes , then does the SAP message server , gateway response issue are occurring. Look at this approach also.
Apparently , Most of AE admin's would have less/ moderate understanding on SAP System landscape & even CA support L1, L2 Teams. We always tend to do trouble shoot at source end rather destination . Since, they SAP teams are key to every enterprise and they don't wish to go aggressive the SAP teams on understanding issues rather they come to AE Admins.
Looks like , Current JCo available with SAP is 3.0.1