Downtown has really improved--I highly suggest Horton Plaza and the area immediately around there. Watching the sunset from the top of the Gaslamp Marriott (Altitude Sky Lounge) is a MUST.
And Thor, dear man, I hate to tell ya, but El Indio has dropped off considerably. Santana's has a better carne asada burrito these days. I'd suggest Casa de Loma on Rosecrans (across from old NTC), or if you're into Japanese, Yakitori II, which is on Sports Arena Blvd. near Midway. On the other side of Midway (still on Sports Arena) is Embers. AWESOME wood-fired pizza.
Then again, if you're around downtown, stick to the Horton Plaza area--can't go wrong.
Coronado--McP's, but only if you are a SEAL--not a really good Irish pub. However, right down the block is Miguel's (also one in Point Loma.)