Thanks for the assistance, I currently have a batch file on a local PC at each site that is having the issue but if the PC is turned off it stops working, I added my internal IP to traffic shaping; I will monitor and report back if the problem persists.
Another trick I have used is to configure a protocol like ntp on a printer and point it at an IP at the remote site. Doesn't matter that it doesn't work (doesn't even matter if the remote IP is in use) - it causes regular small amounts of traffic to be generated.