None of the cruises that combine with train-bus-cruisetours in Alaska's interior seem to stop at Sitka. That's one place I really wanted to go. Anyone know why, or does anyone know of a cruise that's not round-trip Vancouver that does stop at Sitka?
You can not get the trip you are looking for on the major cruise lines. It is possible, but there ae trade-off. The Radisson Seven Seas Mariner is a high end ship where cruises start at $3,000. They do Sitka. Or you could do a custom itinerary that would include using the Alaska Marine Highway, but this would not be a cruise-based itienarary and you would not get all of the on-board activities and the unpack once and you're set for a few days experience you would get on a cruise line.
Or better, go interior on your own. Then you can spent the time and money on areas of interest to you. Group point to point interior Alaska travel is lacking in my opinion. Easy to rent a car and stay in B&B's which offer a real Alaska experience. You can see more for significant savings vs the cruise tours.
My opinion only, but be VERY educated on what you are purchasing with a cruise tour. Plenty is NOT disclosed and be certain you are purchasing what you think you are. A big factor is the time in transit, best are tour add ons of at least 7 days. Be knowledgeable about Denali Park, and forget any cruisetour with the Natural History tour in included, totally worthless. Budget 50% more than at home for meals, then you have a cushion for some splurges.
Sitka is a little harder to get to. There is a section of very, very narrow access (called the Narrows) where you can almost touch the bank on either side. I would guess that some of the larger cruise vessels don't like to navigate this area. The tides are extreme and current is very swift. I have been there 3-4 times on the Alaska ferry system. You can take the Alaska ferry from Juneau and spend a few days and then head back ot Juneau iv youf schedule permits. Sitka is one of the most enjoyable towns in the Southest. Very historic and color Russian Orothodox church.