Interesting points on the Yeerks being more like mysticete whales (don't worry, you're talking to a biology major and a grad student in museum studies in paleontology, here--woot for bio-nerds!
)--however my issue with the Yeerks being able to absorb microbial life is that there is very little to suggest the Yeerks had a method of doing so. The Yeerks are described as having 'osmosis nodes', which are the equivalent of a "mouth" according to Ax; however their name suggests that they aren't phagocytizing or engulfing whole organisms with their very fluid cells. Rather, the term osmosis makes me think that they are allowing a concentration of chemical nutrients and water to be absorbed by their hungry cells. You can certainly draw any conclusions you want from this, feel free to make the Yeerks whatever you imagine them to be---but my opinion based on this description is that the Yeerks were simply absorbing amino acids or vitamin nutrients along with water to replenish their bodies. I always just figured that while the nutrients in the pool are important, the one thing that Yeerks really
needed to survive was Kandrona, interacting directly with their bodies, and not indirectly through facultative cyanobacteria or something similar.
Also, practically speaking, how would Yeerks create portable pools when they needed not only a portable Kandrona generator, but also the microorganisms from their homeworld? Is it ever stated that they needed a petri dish of fresh organisms to install in a portable pool? No, which doesn't rule out the idea, but I think it's a little far fetched given how critical Kandrona is described as being to the Yeerks' lives, and not necessarily the nutrients themselves.
My defense for the Yeerks being autotrophic (again, in my opinion) is that firstly, these are aliens. They may need only a small amount of time under the energy of what is described as a "Kandrona wave/particle generator" (light is both a wave and a particle) in order to replenish their cellular protein store, aided by the nutrients in their pool which I believe are secondary to their survival. After all, wave-particles do indeed travel through the vacuum of space, evidenced by...well, all life on Earth depending on the photons from the sun exciting the chloroplast electrons in plants. I figure that the Kandrona wave/particles have a radically different wavelength (or optimum wavelength reception inside Yeerk chloroplasts) than that of Earth sunlight, and that their "strange sun" is so unique in this production of its wavelengths that it is rarely found anywhere else but produced by the Kandrona itself, or the Kandrona wave/particle generators. Just my two cents, and since I have plenty of Yeerk characters in RPs I had to figure out some nerdy way to consolidate their biological need for Kandrona
I'd forgotten about the Arn's self-destruction when there's a slight increase in cranial pressure! That's awesome, it means that K.A./Michael Grant were thinking about this stuff at least a little, bwahaha. Yes I agree that a particular suspension of disbelief and a reasonable assumption that life around the galaxy is more carbon-based than not are useful tools when discussing the biology of fictional alien species.
Another note that kind of throws the topic of "bloodedness" into question is that when Cassie morphs into Illim in #29, her heart stops beating, then shrivels up and disappears. I always took that to mean that Yeerks didn't have a circulatory system, at least not one that is anything like we know. Perhaps the slime that they're so dependent upon is the same makeup as their cytoplasm, and the fluidity with which their bodies can change and flatten both rules out a need for a circulatory system and protects the host brain from any conflicting movement or additional pressure from blood pumping and coursing in a tissue-thin Yeerk wrapped around it.
So...maybe they had their own version of cold-bloodedness, or perhaps they were able to adapt to any host body temperature (within reason--they still couldn't survive the heat of a jacuzzi) by having no need for internal circulatory temperature regulation within a certain buffer zone.
Interesting note, too, with the #41 mistake (?) or number change. That always could've had something to do with there being a vast number of hosts to control, but I tend to think it was some kind of mistake by the puppetmaster behind Jake's vision...
I'd argue against the Yeerk's aggressive nature, however. Yeerks describe themselves as peaceful by nature on their homeworld (Temrash, Aftran, even Edriss says they had only fought a handful of conflicts--possibly only after leaving their homeworld), only infesting what they were born to infest, and only after creating an Empire and being basically given the shaft by the Andalites ("look, stars! No, you can't have them.") did the Imperialist and aggressive nature (power hungry, sadistic, and a little bit crazy bananas) of a few (but not all) Yeerks come to the surface. Even the hierarchy of Yeerks wasn't nearly as competitive until ranks like Visser and Sub-visser came around, evidenced by the young Esplin 9466 in his newfound pride at having a title beyond his birth rank. The Council always existed, but it seems as though social competition really ramped up after the Yeerks left the homeworld. So, I guess I don't think the Empire form of society was necessary, but it was certainly desirable for many Yeerks who saw a way to be as dominant as the Andalites in the galaxy, in the only way they knew how--controlling other species.
Nevertheless, their biological need for exponential growth really does indicate they were preyed upon pretty severely over the millennia. There is that good old Yeerkbane/Vanarx in the series, after all