Okay, loaded CloneBD version 1.0.8.4 and only did clip #58 (seems to be problem video) and it hung at exact same time index of 00:00:41 with same graphics shown by original poster. I let it run for a minute after hit abort I I didn't get back to screen to create log file, program just stays on the preview/processing screen. I did click on settings and clicked on show debug log and copied into text file that is attached.
BTW, file size DID NOT go nuts in temp folder (32MB)...
Here is key portion:
00:00:01.716 | [Warning] ...suppressing identical messages....
00:00:04.081 | [Debug] Transcoder [Chameleon-5] MEMORY_SHARE::Allocate:318 > MEMORY_SHARE(SUBTITLE PLANE): NO MORE MEMORY (HOLD) -- size=320, count=8(8), entry-size=320/0 (320)
00:00:04.081 | [Debug] Transcoder [Chameleon-5] MEMORY_SHARE::Allocate:323 > MEMORY_SHARE(SUBTITLE PLANE): NO MORE MEMORY (RELEASE)
00:00:04.081 | [Debug] Transcoder [Chameleon-5] MEMORY_SHARE::Allocate:318 > MEMORY_SHARE(SUBTITLE PLANE): NO MORE MEMORY (HOLD) -- size=320, count=8(8), entry-size=320/0 (320)
00:00:14.208 | [Debug] Transcoder [Chameleon-5] TASK::Insert:348 > Chameleon(00000000) :: Task insertion stalled for pid:1101 - Audio Encoder ([counter:918], 918..926, max 8)
00:00:14.208 | [Debug] Transcoder [Chameleon-5] TASK::Insert:348 > Chameleon(00000000) :: Task insertion stalled for pid:1100 - Audio Encoder ([counter:918], 918..926, max 8)
00:00:14.208 | [Debug] Transcoder [Chameleon-5] TASK::Insert:348 > Chameleon(00000000) :: Task insertion stalled for pid:1100 - Audio Converter ([counter:927], 927..935, max 8)
00:00:14.208 | [Debug] Transcoder [Chameleon-5] TASK::Insert:348 > Chameleon(00000000) :: Task insertion stalled for pid:1101 - Audio Converter ([counter:927], 927..935, max 8)
00:01:07.771 | [Debug] Transcoder [Chameleon-5] SYNCHRONIZER::SetVideoEnd:192 > Chameleon(00000000) :: Synchronizer received signal for end of VIDEO
00:01:07.771 | [Debug] Transcoder [Chameleon-5] CHAMELEON::ThreadWriter:183 > done, 80004004
00:01:07.771 | [Debug] Transcoder [Chameleon-5] CHAMELEON::ThreadReader:99 > done, 80004004
00:01:07.771 | [Debug] Transcoder [Chameleon-5] TASK::Insert:355 > Chameleon(00000000) :: Task insertion stalled for pid:1100 - Audio Converter (resolved with 00000001 [abort])
00:01:07.771 | [Debug] Transcoder [Chameleon-5] TASK::Insert:355 > Chameleon(00000000) :: Task insertion stalled for pid:1101 - Audio Converter (resolved with 00000001 [abort])
00:01:07.771 | [Debug] Transcoder [Chameleon-5] TASK::Insert:355 > Chameleon(00000000) :: Task insertion stalled for pid:1100 - Audio Encoder (resolved with 00000001 [abort])
00:01:07.771 | [Debug] Transcoder [Chameleon-5] TASK::Insert:355 > Chameleon(00000000) :: Task insertion stalled for pid:1101 - Audio Encoder (resolved with 00000001 [abort])