I have never used a PT and dont know much about it but I have heard the trans tables you can adjust arent the same or at least as many as HPT can play with. If there is not an incorrect gear ratio code then I would copy and paste what is on the existing file. For the stall converter you shouldnt have to do anything, but because the lockup clutch likely isnt a woven carbon one as the factory ones are that are designed to allow slippage then you will also need to see what they did in the tune for the TCC min duty% and bump up the stock table a bit to help with lockup. The only way to rule out the EPC is to get the trans hot and when the code will become present after clearing it and install a pressure gauge and use a scan tool to command line pressure changes and watch the gauge to see if it is doing what it is supposed to. The boost valve should also be new in the valve body if not the whole valve body, but again if there is excessive debris contaminating the valve body it can cause all sorts of weird problems.
