Right after tearing my hair out all weekend with this, I thought it may be time to give someone else the nod, I have searched countless forums but am now overloading with info

Anyway, using a 2.35:1 source at 23.976fps at 1h49m32s. (ac3 sound)

I have successfully tried a number of techniques to convert this to a 25fps PAL 16:9 keeping the correct 2.35 aspect ratio and ac3 for standalone usage. But.....I have been getting an audio mismatch when both have framerates changed, now after using CCE I notice something odd. Simple script for loading and resize only, I notice that the running time (still at 23.976fps) is 1h49m25.16s!!!

I think that this may be causing the sync problems, any suggestions?