The human military is very diversed - ranging from AH-64 Apache to Leopard 2 and F-22 Raptor. Why do you think the Ceph would be limited to using only one type of flyer unit (from C1) having in mind IT FAILED BIG TIME IN C1 SINCE THEY EVENTUALLY FAILED TO WIN AGAINST US NAVY. The tank, helicopter or interceptor is not a human - it is a machine/unit operated by men. The same goes for aliens. They use different type of machines. The units you see in C1 and C2 are not aliens. These are machines operated by aliens inside.. Come on, how can't you see it people.
The actual alien without machinery: HERE
You see, he's very similar to terran amphibians - for example the octopus. It seems obvious these creatures must have evolved in ocean (it was mentioned in C2 anyway).
Now take a look at unit from C2: HERE
Have you noticed the tentacles on the back of the unit? Now try to compare it to alien from C1. Yes, they are very similar. It is just that you fight aliens in exoskeletons in Crysis 2. Since they are amphibians their natural environment would be some kind of liquid (water or not) and they don't have legs. That's why they use these exoskeletons - how else could they fight? Flying units are not your dream unit for invasion - they can't take cover, they are easy target. Isn't it obvious you need infantry to win?
All in all I think that aliens from Crysis 1 are pretty well connected to aliens from Crysis 2. The only thing that cannot be explained is that: Since they are so technically advanced that they came here 2 milion years before humans from the galaxy M33 that is 3million light years away from us - they would probably already have such a technology that they would wipe us out without any problem nor casualities on their side in a blink of an eye. But hey, it's a game, it's not suppoused to be 100% realistic..
Spread the word, haters.