The 2 parts in the Tutoriual that talks about subtitles, just follow those and all should be well.
8. Click the Subtitles Tab. Tick Rip Subtiles if you have external subtitle file to be included (read later on how to add this subtitle file in). You MUST select Permanent as the other options will not work here. Otherwise, leave un-ticked.
and
16. Click the Conversion Tab again and if all is ready, click the GO button (the one with the green tick on it). Click Start Conversion then confirm with OK. If you have selected Subtitles to be included, then click on Add External Subtitle Streams instead and when loaded, select the one you want. Subtitles must be in the *.sub (MicroDVD) or *.srt (Subrip) format. Then click the Go button again if you loaded in Subtitles.