Subtitles can seem to "flash" when one subtitle card switches to another and there is a gap of a few frames in-between.
With Simon Says you have the option to create "gapless" subtitles which will remove any gaps between subtitle cards when the gap is less than 1 second.
Click export from your transcript
Choose the option "Subtitles"
Then choose the format "SRT" and the suboption "Gapless"
A gapless SRT file will download to your computer. :)