I tried 2 different movies (Ratatoulle and Surfsup) and experienced the same problem -- I used TSsplitter (TSsplitter 1.00, downloaded from fast forward projects, they say 1.00 is the latest version) to join seamless branching discs (some 20+ streams in Rat and 3 streams in Surf). Then I used TSremux 0.0.19 to get rid of unwanted audio streams.
When I play final .m2ts file (I use PowerDVD 7.3, version that came with LG combo drive) I get some video freezing issues which appear to occur at the point where files have been joined. What strange is that audio plays normally but video stream seems to freeze for 3-4 seconds then normal playback continues. I am not sure if it's PowerDVD issue, but other non-seamless movies (CasinoR, Prestige) converted with TSremux play without any problem. Does anybody else have this problem ?
Thanks, Davie.
Update: I just set up MPC with Arcsoft decoders as described in here:
http://forum.slysoft.com/showthread.php?t=12549
..and I no longer have "video freezing at joint point" problem when playing with MPC, so it appears to be PowerDVD problem -- there is a small, barely noticable millisecond "skip" where streams have been joined but I am sure if you don't know where to look you will probably not notice it.