@Mark Hill
"We are planning to form a separate LLC for our partnership deals, but my question is since I since I live in CA, will I still be responsible for the $800 franchise tax fee?"
This depends. Will you be doing business in California on behalf of the LLC? Making management decisions, corresponding with the property manager, etc.? If so, then California says that you are "doing business in California," and you must register it with the California Secretary of State, pay the annual $800 LLC tax, and file the annual Form 568.
"How do these out of state partnerships/LLC's get handled at tax time?"
Your LLC (assuming it does not elect to be treated as a corporation) will file a federal Form 1065 as well as state tax filings that have various filing requirements depending on the state.
Note that there may also be withholding requirements on these state partnership returns to the extent of nonresident partner income (some states impose such requirements, some states don't, some states you can waiver out of).