Degugging on a 4.6C Custom BSP_Framework (using Model View Control with HTML and JAVA) on Server X and HR/PY BAPI Application Functions on Server Y

We are struggling with the best way to DEBUG the RFC function calls from the MVC (Seibel) Z_BSP_Framework on our 4.6C system, which is using RFC calls to the BAPI HR/PY application Functions, which are primarily custom in nature. Due to the remote connectivity through the DCOM we have a very limited amount of time to debug. Generally the appliction will TIME OUT long before we have gotten to the program source which is causing a problem or is a suspect.

What is the best method or special technique we could us or exploit for debugging?

Also, how can we veiw the RFC calling sequence post motem? After the connection is lost!