From my experience, if u make changes to parms of TM, they will take effect the next time u restart BOINC or any app that uses TM. Also when BOINC moves onto the next WU will it read the parm for the particular project. It will not read them when switching projects using the Pre-Emting Keep In Memory of say an hourly project switch, only when starting a new WU. That's how is works on my WXP SP2.

cheers