Litetrek, I probably should have followed my first instinct and stayed out of this thread because I've never resin coated the entire hull of any of my 18 boats and none of them is a Wenonah. I'm not sure whether your Wenonah is skin coated or clear gel coated. That might affect my decision as to how much or aggressively to sand.
I am familiar with what a lot of boaters have done with skin coated Kevlar whitewater canoes and flat water racing canoes. Most commonly, they do what Cheeseandbeans has recommended: patch the damaged areas with fiberglass and live with the old aesthetics, which don't look that bad to me from your pictures.
However, re-reading your OP more closely about purchasing new anodized gunwales and painting your thwarts black, I finally realized that what you want to do is to make the entire boat look as new and shiny as possible.
If that's so, then I think there are three reasonable coating alternatives: varnish, resin (perhaps tinted), and paint. I do recall members here coating at least the bottoms of their skin coat canoes with resin or varnish or both. I recall one person not being happy with the resin coat (epoxy, I think) because he found that it chipped off in chunks after some period of usage. Hence, he ended up preferring varnish.
However, if you are determined to cover up the poor aesthetics of mottles and fades, varnish may not do that. It would thus seem that your proposal to use a tinted resin is quite logical. I'd probably consider taking Wenonah's advice as to the best resin, though lots of folks have a preference for epoxy. If the tinted epoxy coat doesn't satisfy your aesthetic preference, it certainly has done no harm to the canoe and should be a decent undercoat for an appropriate shade of matching paint.
As to Kevlar skid plates, there has been a significant empirical preference for Dynel over Kevlar on this forum. There also have been strong arguments to not apply skid plates until your stems are so damaged as to actually need them—that is, not to apply them preemptively.
If you can't hang a seat from your gunwales or set it on brackets riveted through the hull, you can make or buy seats that sit on the canoe bottom. Members here
@Alan Gage and
@stripperguy have made such bottom-mount seats and have posted pictures of them.