My explanation for Gaius' character changes from 1.0 to 2.0 is the WoL-centric amnesia everyone got after the Calamity. Gaius starts off 1.0 not respecting the WoL at all, but by the end, the WoL is the one Gaius goes to to warn the Eorzean Alliance about the VIIth Legion. Gaius spent all of 1.0 watching the WoL fight primals, help the Eorzean Alliance form and defeat Nael. And then he forgets all of that. It probably doesn't help either that for the next five years, no one rises up to take up the WoL's role. So I can see Gaius going along with whatever he thinks will work when the opportunity presents itself.
Ironically, the best thing Gaius could do for the XIVth Legion is leave them in Eorzea. They don't have anywhere else to go. One of the first things Nero reveals in the Crystal Tower raid is that everyone in the XIVth Legion has death sentences waiting for them back in Garlemald. And the Eorzean Alliance is practical enough that they know they have more pressing problems to deal with then go after a bunch of castrums that aren't backed by the Empire and aren't going out of their way to bother the rest of Eorzea.
The other thing to consider is that Gaius probably feels Eorzea has people in it who can be trusted to appropriately deal with whatever threats come up. The WoL and the Scions have proved they can deal with eikons and the WoL was there when Laharea spilled the beans on what the Ascian's goals are and liked them as much as Gaius did. Cid and the Ironworks are more then capable of figuring out any Allagan tech lying around and Nero's there to bring anything they need to deal with to their attention. To top it all off, the Eorzean Alliance is stronger then it's ever been in recent memory and has a set of reasonable leaders in charge of it. So Eorzea's in a good position all things considered.
Ilsabard, meanwhile, is a potential disaster waiting to happen. I can't see any reason Gaius would know about the Ascians before he met Lahabrea, so he probably assumes Ilsabard doesn't know about them either. So Ilsabard is ripe for Ascian manipulations. The Scions can't get there and would have no idea what to look for even if they could get in there. Gaius though... he's from Ilsabard and conquered part of it. He probbably knows what he should be finding there and what shouldn't be there. From his point of view, there probably isn't anyone else who could know where Ascians are in Ilsabard better then he could.



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