MkvToMp4 error and audio sync problem

[lemmy999]

I have been using this program (0.224) for a while to convert mkv files to mp4 and it has generally worked well. However the mp4 file will often have the audio out of sync by about 2.4 seconds. I can correct this by adding "2400" in the "Delay" setting. However lately I have had several mkv files that result in MP4Box crashing at 99%. The error in the log is "Mp4Box terminated with error: 3221226356"

This is the source file information (from Mediainfo)

eneral
Unique ID                                : 102114455389470586777438309571762730193 (0x4CD2875B6F5D19211A555D703D5634D1)
Complete name                            : K:\VIDEO\Race.mkv
Format                                   : Matroska
Format version                           : Version 4 / Version 2
File size                                : 1.19 GiB
Duration                                 : 1h 5mn
Overall bit rate                         : 2 599 Kbps
Writing application                      : Lavf56.25.101
Writing library                          : Lavf56.25.101 / Lavf56.25.101

Video
ID                                       : 1
Format                                   : AVC
Format/Info                              : Advanced Video Codec
Format profile                           : Main@L3.1
Format settings, CABAC                   : Yes
Format settings, ReFrames                : 2 frames
Codec ID                                 : V_MPEG4/ISO/AVC
Duration                                 : 1h 5mn
Bit rate mode                            : Constant
Nominal bit rate                         : 2 500 Kbps
Width                                    : 1 280 pixels
Height                                   : 720 pixels
Display aspect ratio                     : 16:9
Frame rate mode                          : Constant
Frame rate                               : 25.000 fps
Color space                              : YUV
Chroma subsampling                       : 4:2:0
Bit depth                                : 8 bits
Scan type                                : Progressive
Bits/(Pixel*Frame)                       : 0.109
Default                                  : No
Forced                                   : No

Audio
ID                                       : 2
Format                                   : AAC
Format/Info                              : Advanced Audio Codec
Format profile                           : LC
Codec ID                                 : A_AAC
Duration                                 : 1h 5mn
Channel(s)                               : 2 channels
Channel positions                        : Front: L R
Sampling rate                            : 44.1 KHz
Frame rate                               : 43.066 fps (1024 spf)
Compression mode                         : Lossy
Language                                 : English
Default                                  : Yes
Forced                                   : No

Menu
00:00:00.000                             : :Chapter 1
00:04:57.640                             : :Chapter 2
00:50:26.480                             : :Chapter 3

I pretty much have the default settings for MkvToMp4. The only thing I think I have changed is the output format (changed from m4v to mp4). This is the log output:

Repack/encoder video to MP4 for Apple iPhone, iPad, ATV2. MkvToMp4 version 0.224 (x64)
Build from: Sep 24 2013 14:57:05
Use log file: ../Temp/Logs\10_07_2016_16_58_57.txt
CoreAudioToolbox version: 7.9.7.9
Added on list: K:/VIDEO/Race.mkv



Started processing file: K:/VIDEO/Race.mkv
Starting MkvExtract with the parameters: 
../Tools/mkvextract\mkvextract tracks "K:/VIDEO/Race.mkv"  0:"../Temp/video.264"  1:"../Temp/Race_internal_audio_2.AAC"
Extracting track 0 with the CodecID 'V_MPEG4/ISO/AVC' to the file '../Temp/video.264'. Container format: AVC/h.264 elementary stream
Extracting track 1 with the CodecID 'A_AAC' to the file '../Temp/Race_internal_audio_2.AAC'. Container format: raw AAC file with ADTS headers
Starting Eac3To with the parameters: 
..\Tools\eac3to\eac3to  "C:\Users\shane\Desktop\MKV 2 MP4\MkvToMp4_0.224\Temp\Race_internal_audio_2.AAC" "..\Temp\Race_internal_audio_2_new.AAC" +2400ms  -progressnumbers
AAC, 2.0 channels, 44.1kHz                                                     
Applying AAC delay...                                                          
A remaining delay of +9ms could not be fixed.                                  
Creating file "..\Temp\Race_internal_audio_2_new.AAC"...                       
Done.                                                                          
Starting Mp4Box with the parameters: 
../Tools/mp4box/x64/MP4Box.exe -new  -add "../Temp/video.264":fps=25.000:lang=eng:name="" -add "C:/Users/shane/Desktop/MKV 2 MP4/MkvToMp4_0.224/Temp/Race_internal_audio_2_new.AAC"#1:fps=25.000:lang=eng:name="" -itags tool="MkvToMp4 [www.mkvtomp4.ru] version 0.224 (x64)" "K:/VIDEO/test\Race.mp4" -tmp "../Temp/Mp4Box"
AVC-H264 import - frame size 1280 x 720 at 25.000 FPS
Mp4Box terminated with error: 3221226356
Total time: 41 sec.
0 files processed.
1 errors.

Is there anything obvious here? Thanks.

[lemmy999]

The mp4box version included with 0.224 MkvToMp4 is 0.5.1-DEV-rev4765. I updated the files to the current version of mp4box which is 0.6.1-rev0=g72d766c-master and I still had the same error. When I used the command line with either of these, mp4box crashes at 99% when importing the video file, so the AAC file isn't hte problem.

I had an old program called YAMB that also uses MP4Box and the version was 0.4.6-DEV (build 1). I took the .264 and .AAC files created in the TEMP directory by MkvToMp4 and used the command line for the older MP4Box and it works and creates and mp4 file. It does generate several:

"WARNING: NAL Unit type 13 not handled - adding"

The video plays fine with no audio sync issues, but playback is very choppy.