What kind of issues are you having. With EPGP, there should be no negative numbers unless you're making an adjustment of some sort. Otherwise, all numbers entered into the game dialog boxes and on the website should be positive. For example, When asked how much did X spend on Y, make sure you enter "10" as opposed to "-10" (assuming Y costs 10).
What is the discrepancy between the game and the site?
Give me a call sometime today and I can help you out 414.940.4866. I'll be around to take calls after 4pm CDT. Otherwise, leave a message and I'll call you back today.