Glad to see the Sublime 3 development rolling along.
In my work environment, we tend to use two of the PHP comment tag styles in different ways. We will usually use double-slash (//) to indicate a removed piece of code, whereas we'll use the hash mark (#) for a one-line comment.
So, if you have something like this...
# This code is meant to amuse yet frighten players
echo 'It is pitch black. You are likely to be eaten by a grue.';
// echo 'All your base are belong to us';
Ideally I would pick a very muted color for the '//' comments but perhaps something more visible for the '#'s.
I think the color-themes assign both of these (// and #) as "comments", so color changes impact both. Would the trick be to find where '//' and '#' were defined, give them their own names ('comment-details' verses 'comment-deactivate') and then be able to assign different colors for each (when using PHP)?