i guess the ECU fail to read ur gearbox. as per mention, auto to manual. ur ECU still read it as auto~! u can go to PDT(i forgot the name). go to proton, and ask for it. they will reset ur ECU from auto gb to manual gb. my frenz did the same with his gen2. at first he not do the PDT. rpm act like auto. when u engage clutch, the rpm will auto gain about 0.5k. its like when u change ur gear from D to N. where ur rpm will up a bit if u notice. 2nd, his pickup quite bad for a gen2.
after he do the PDT, the car going much faster and top at 215km.h with big 17'rim and big big gt wing~!
hope it helps u~! share my info only. correct me if im wrong