You have the strip charts which are essential. I would reccomend getting some of the larger charts to put the strips in perspective as far as disance etc. Also if you plan to go out into the Bay, you'll need to see where and how to get out and back into the small craft channel and what's "out there".
Ports is excellent. I've used it for 4 seasons and it has been invaluable. Can't think of any other guides with as much in-depth info. We've done 2 trips up to Baie Fine, past Killarney and 1 other to the Bustard Islands and numerous shorter trip to the Parry Sound area, not to mention many weekends to Beckwith, Hope and Christian Islands. I've studied Ports for each trip and has been great for fuel, pumpouts, groceries and most of all, good anchorages.
You could probably do a combination of anchoring and marinas on the way. Henry's on San Souci Isl. is awesome for fish & chips and even a night stayover, Killbear Marina is decent, just at the mouth of Parry Sound. You could even get into some of the town docks etc. along the way, I can't think of locations ( book is on the boat ) but study Ports and you'll get a good idea. The town of Killarney is also a good stop over for the night or two and restocking etc. and make sure you hit the Fish & Chips bus on the town dock.
As far as anchorages, I could go on for pages with favorites. The area is outstanding for scenery. Try to pick anchorages near Crown Land, ( we do for the dog ) and get on shore to stretch your legs and enjoy the Georgian Bay feeling.
A few fav's .... Josephine Rocks at Shawanaga Island ( just north of Parry Sound), Bustard Islands, also be sure to go through Collins Inlet, and our hands down fav. Baie Fine.... let me know if I can give you any more info...