I would an suggest an apartment in Golden Hill, South Park, North Park, Coronado, or downtown San Diego would be very nice. Coronado is probably most expensive and the longest commute given the toll bridge. Parts of National City are very nice and close to 32nd street too. I suggest you get a short term (1-month?) rental in any of these neighborhoods and spend some time walking in them to get a feel for where is most comfortable for you both.