The input or output formats are limited.Go back to the main window and click the “Start” button. Click “Browser” to choose the file destination. And you can customize filters, dimensions, chapters, encoder, and more. Under the “Summary” tab, Choose “MP4 File”. Select all the MKV files that need to be converted to MP4 format from the Mac folder, and then click 'Open'. Click “Source” > “Open File” and browse your file system to where the MKV files are located. Steps to Convert MKV to MP4 Mac Using Handbrake: Handbrake contains lots of features as well, such as adding subtitles, live video preview, an integrated bitrate calculator, picture cropping & scaling and so on. It has been around for 10 years and remains the best possible way for converting MKV file to MP4 on Mac. Windows and Linux platforms can be used as well. Handbrake is one of the best free MKV to MP4 converter on Mac.