TX264 offers support for subtitles, too.
The main features of TX264 are converting videos to H264; converting audio to AAC, OGG, AC3, MP3 or FLAC containers; splitting according to time or size; copying chapter information to output; copying subtitles to output; muxing videos to MP4 or MKV and using presets or advanced options.
TX264 runs in Windows XP, Windows 7, 8 and Windows Vista. Its last versions have been improved with support for M2TS and TS file extensions and with updates of FFmpeg, QAAC, FDKAAC, and MkvToolNix.
This application enables you to convert your videos to MP4 or MKV, with H264 video and AAC, OGG, AC3, MP3, WAV or FLAC audio streams.