I've noticed as well, that the AI in FF has an alarming tendancy to spam recon units. Much, MUCH moreso than in FFH.
I even have proof, look!!
This picture is of the Hippus empire in my Khadi game. It's hard to see, but if you look around, you should notice one horseman. ONE HORSEMAN, in a race whose whole focus is horsemen. Their entire army is hunters. hundreds of them.
This behviour is definitely different from base FFH. The Hippus in that are quite good about building horsemen, and warriors/axemen as support. They rarely made hunters from what I've seen, and due to their aggressive nature, I've fought against them countless times.
They've just spammed hunters everywhere, and they're not alone. Almost every race is doing it. The hippus declared war on me a hundred turns or so ago, and they brought in an invasion force that consisted almost entirely of scouts. And when I invaded the Khazad, most of their defenders were scouts, too. Scouts everywhere.
This explains why the Austrin are doing so well, though. They're spamming trackers all over the place, too. I actually had problems fighting them off when they declared war on me. This new AI is brilliant for races like the Austrin, and Svartalfar, whose focus SHOULD be recon units. So I'd suggest that when you find what's causing it, keep it in place for those. But for races that don't have super recon, it's severely handicapping them. Axemen > hunters. I can shred my way through these hunter armies easily.