Anacortes [1] is natural place to rest your head before or after a long haul on the ferries across the San Juans [2]. It is also an excellent base camp for families and young travelers sticking to a budget—rooms are significantly less expensive than on San Juan [3], Orcas [4], or Lopez [5], and all the islands are within easy reach for a day trip.
Make reservations far ahead for the summer months; some places fill up by March for the peak season in July and August.
Links:
[1] http://www.moon.com/destinations/washington/san-juan-islands/anacortes
[2] http://www.moon.com/destinations/washington/san-juan-islands
[3] http://www.moon.com/destinations/washington/san-juan-islands/san-juan-island
[4] http://www.moon.com/destinations/washington/san-juan-islands/orcas-island
[5] http://www.moon.com/destinations/washington/san-juan-islands/lopez-island