Will be in San Francisco later this month and plan to take the ferry to Sausalito and have lunch there. Would appreciate recommendations for moderately priced restaurant that has outdoor dining and bay view.

I just walked around and picked one. Don't remeber the name, but the shrimp were good.

BAK

We had a great lunch at, I believe it was Scoma's. Clam chowder was great and the water view's awesome.

Alta Mira has a lovely terrace looking out on the water. This may not be considered moderate.
Do a search & check the view & you may then want to splurge,.

The Alta Mira has an amazing view and a huge patio. It is up a hill from the waterfront. The food is good and the ramus fizzes are out of this world. We really enjoyed brunch there.

Any other suggestions for restaurants right by/on the water?

The Spinnaker or the Water Street Grille both have views. I've taken visitors to brunch at the Spinnaker a number of times, it does have a great view and the food is good (nothing special but OK). Also been to Scomas an number of times, same review IF you get a table with a view. If you are seated inside without view not worth dining there. A third place is Valhalla but it has been so long since I've eaten there.

Perhaps consider the ferry to Tiburon-less touristy IME. And for lunch try Guaymas for outdoor seating right on the water, or 2-3 doors down,-Sam's Anchor Cafe.
R5

I would agree with Razzle--Guaymas is fantastic and their outdoor seating is literally on the water.