Well...so far, nobody has mentioned the biggest advantage the Angler has over the Cruiser. It's without a doubt, the best looking boat C-Dory has ever made. It's studly enough to impress the most macho of your fishing buddies, while still being the ultimate chick magnet in the product lineup.
On the more serious side...
Agreed with the other Angler owners - no Permatrim is needed on an Angler. It's as near a perfectly balanced boat as I've been on, and motor trim is more than adequate for any for/aft adjustments.
Power - we've a wimpy 40HP Yamaha on ours, which doesn't give us near the top end I've seen others reporting. But, it's more than adequate for two guys and complete fishing gear. The days we can run wide open are far and few between.
Protection - yes, the Cruiser has more cabin protection from the elements. However, depending on what you want protection for, it may be a non-issue. For the humans, there is plenty of cabin protection in an Angler - neither sun nor rain are an issue in any weather I've fished in.
And lastly, an issue that applies to both models - the trailer. I'm a die-hard bunk fan, on all of the larger C-Dorys. On the 16 Angler or Cruiser, I'd go rollers as it improves upon the already greater launch opportunities of the 16. If you only launch from improved areas with docks, that's obviously a non-issue. But from shallow beaches or other places where one wouldn't think of launching a 22+ - toss on a pair of waders, and you can get the little boat in/out of just about anywhere with rollers and a good 2-speed winch.