Web Services Returns Faulty IsSuccess Boolean

We are currently pushing orders via web services from our third party ecommerce engine into Netsuite.

I've been seeing some odd behaviour lately and I assume that this is related to the database overhaul. Only recently there have been issues where we get time outs for our server scripts. 

This is causing orders to be pushed into our system twice because when I get the error:
"com.netledger.core.scripting.NLServerSideScriptError: Script Execution Time Exceeded. " and the "isSuccess" field is marked as false, the order actually is still imported.  This makes it so I don't update the order in the third party engine to be marked as posted.  For now, I am assuming that if the error message is the same as that above I will mark it as imported but it is strange that it tells me that it has failed.