Well, some if it makes a little bit of sense. Most of the stations have a set of "2nd call" tones which are almost never used; some of the other stations like 13 and 28 now have two or three sets of tones that get used a lot.
After listening to the traffic a little closer, it seems like on any call for additional apparatus or any call that calls a station with multiple tones, the tones for the first due piece are sounded at the end of the call. This may be a requirement of the equipment, or simply protocol.
For instance, the three above examples:
the four-set 36-3 call called, in order: station 3; station 40; station 17's first set; station 36.
the second call, for PM35: station 35, station 36.
the first long call that I mentioned called, in order: Station 2; BC3; unknown secondary set; station 29; B35 all call; B35 long tone; station 36.
In case I didn't mention it, the pieces named out loud, in order; were Engine 172, Squad 2, BC3, Special Operations 35, and FM760.
So, as you can see, the tones aren't always in the order in which the apparatus are to respond, either that or fire alarm doesn't always verbally read them in the order they are to respond.
I've got almost half of them done; they actually make some semblance of sense if you look at the Moto reed tones vs. the actual frequencies. A lot of the original stations inside the battalions are in reed tone numerical order. I'm gonna set my recorder while I'm at work and class today, and hopefully I can get a lot of the rest of them figured out.