Excellent points made by Mollydog about getting the Tourist Permit ( FMM ) at the border. You MUST get it there when entering Mexico and you will not be permitted on the ferry to the mainland without it. The TVIP ( temp . Vehicle import permit) can be gotten at Banjercito at the ferry docks in Pichilingue - which is actually NORTH and east of La Paz , so don't ride out of town southward looking for it

Remember too that when getting the TVIP you will need to put down a deposit of up to $400 USD , depending on age of the bike . You GET THAT MONEY BACK when you cancel the TVIP before leaving Mexico within its 180 day valid period.
Re: camping in mainland Mexico - Baldman does oversimplify grossly , I wager he has to look around and search for a good spot that is safe and secure or he is asking permission from property owners .
Simply putting up a tent in sight of the road is just asking for attention from the wrong sorts of people . Stealth camping requires obscurity- no lights , no campfires.
Remember that in Mexico and all the tropics you will be dealing with a constant cycle of nearly equal 12 hours of daylight and 12 hours of dark , no long lingering late sunsets and early dawns as in summer in Finland and Canada that give you 15 hours of light and an hour of fading or more.
Are you prepared to sit around a dark tent for 12 hours every day?
Yes , you can find secure camping spots and actual organized camping places , but do consider that there will be plenty of small inexpensive hotels available in many of the towns and backcountry villages even . Do not force yourself to camp in areas where you question your security.
Learn to recognize such cheap hotels from the signs that most put up , signs that
say " Hospedaje " or Hostal or " Casa de Huespedes" or " Cuartos " " or Se rentan cuartos" or Motel or Hotel =).
iOverLander is a good resource but with practice you can hone your own skills for finding places like these , don't just give up and settle for the first expensive hotel that gets suggested by folks you might ask .
And most assuredly , the customs offices at the entry to Tijuana will have the service for getting the PERSONAL FMM but I suggest that you do not bother trying to get the TVIP there . The TVIP is totally NOT needed in Baja and you are making pointless work and time for yourself at an inconvenient place.
I guarantee you that the TVIP will be available and very easy to get once you are at the ferry docks early well before the hour of departure of your elected ferry boarding. Believe me , I have done that numerous times.
And for your own health and sanity cancel any thought of going to a Mexican consulate in San Diego . The BORDER TERMINAL is your only service point , that is why it is there . The consulate is there mainly for businesses and for Mexicans having problems i n the USA.Nowadays it has lots and lots of work helping that latter group .