First off, I am still trying to wrap my mind around EC and have been for some time now, so take this for what it is worth.
A few questions.
Are you shooting in manual mode, or A priority or S priority? EC will have different results depending on your shooting mode.
To my understanding, shooting in Manual mode EC will only effect what you see on the light meter so you can adjust your exposure components to dial it in.
In shutter priority, the aperture will be changed with the EC unless it cannot completely adjust and then ISO will be changed.
In Aperture priority, the shutter speed will be changed and then ISO. (This is the way I understand it, but still am fuzzy on when to use it and how. Ha!)
All of this doesn't really answer your question as to bright sky vs. dark lake. To be honest, if you aren't already, you will be better off shooting in RAW and trying to use post processing to bring out the dark shadows. You will have to expose for the sky if you don't want it blown out and then work with the dark lake in post processing.
When I am walking around my place, most of the birds in flight I find are dark colored, so with the bright sky I shoot with shutter priority and +1 EC. The result is usually a blown out sky, but a bird that has some definition. I don't use EC much more than that. If shooting manual mode, I just adjust what I need (shutter, aperture, or ISO) to get what I want exposure wise. If I am lucky I can shoot a few shots and adjust as needed. Ha!
Long winded saying nothing. Ha! Sorry