Actually, the two filters (obviously) do different things, and therefore may not have the same service life.
I don't know for sure, and I'm sure Amsoil has a recommendation, so I'd follow that.
Fundementally, the FF filter catches all the big "chunks". Typically, and in reality, these really don't happen that often. If they did, then all us "normal, non-bypass" folks would have engines sieze in 10k miles. So while the severity of large particles is significant, the frequency of their occurence is very, very low.
The bypass filter, OTOH, catches all the small stuff. It strips out the small particles that the oil's add-pack is holding. Basically, the oil is the carrier of "small junk"; the anti-agglomerate (dispersent) additives hold small particles in suspension. There are two ways to get rid of that contamination; either filter it out with bypass, or flush it out with an OCI. Either way works.
Generally, it's reasonable to think that particles 10um or larger are caught with good frequency the first time through the full flow filter, and anything 20um or bigger are almost assured to be caught the first time around. Particles 3um or larger are caught with almost certainty the first time into a bypass filter.
Another thing to remember is that the typical bypass filter system (regardless of brand) only runs about 5-10% of the total volume flow. They are designed this way on purpose. To be so efficient in catching small stuff, both the flow rate and flow volume have to be low enough for the tight media to work. This very slow/low fluid flow cannot support the engine's demand for oil, so the oil is restricted from going into the bypass filter on a ratio of around 10:1. The engine needs most of the flow and volume for the hydrodynamic wedge to float the parts on; if you send it all into the bypass, it will starve the engine for oil. I suppose one could buy 10 bypass filters, plumb them all in parallel, and get the volume needed, but that would be cost prohibitive. (Although, I would not put it past some BITOGGER to try it ...)
So with a typical bypass filtration system, if there is a particle with potential for damaging the engine, it only has a 10% chance of being caught by the bypass filter because it has a 90% chance of simply never going to that filter in the first place. Now, let me make a clear distinction. I am not saying that the bypass filter is only 10% efficient; I'm saying that it only has a 10% chance of catching particles because it only sees 10% of the TOTAL volume flow. Imagine a "T" intersection: 90% of the cars turn right onto the highway; 10% of the cars go left to the amusement park. The total exposure of the traffic flow introduces 10% to the park, and the rest of the cars are not able to be processed. Get it? So, a bypass filter is very efficient at removing stuff, but it only gets a maximum of 10% opportunity to do as such. Therefore, by simple exclusionary math, any particle 2um to 10um in size has a very high probability of "bypassing the bypass filter" (going instead straight for the full flow filter) and heading right into circulation.
* Particles that are large enough to be caught with high probability in the full flow filter are typically caught the first or second time around. Either filter will catch them.
* Particles too small for the full flow filter to catch are still carried around by the oil. These particles have a 90% chance of running amok in the lube system before they are ever intoduced to the bypass filter; 9 out of 10 times they are picked up by the pump, they will go right into the engine.
* The oil add-pack is the primary means of controlling contamination. Until that add-pack is overwhelmed (depleted), the filters are only along for the ride.
So, to the OPs question, the rate of filter loading is not likely the same for each filter. It is likely wrong to assume that the bypass filter will keep the full flow filter from loading up; they act independently. Each brand of bypass system manufacturer likely has FCI recommendations based upon their own studies and design, and I'd follow those.
Food for thought.