THandBrake is a batch GUI for HandBrake. You can use existing profiles or create new ones. Program has features like preview, start-end time option, specifying file size, selection between audio tracks, several filters and cropping (manual or auto).
Batch GUI for powerful HandBrake
Bitrate, file size or quality options
Profiles: use existing ones or create new ones
Audio and video filters
Manual or auto cropping
Start-end position option
Select audio track for files with more than one track