There are others out there with far more knowledge than have about the Sportage, and I hope they lend me a hand here. That said - here is my take on what you said.
1st the water leakage at 39K kms and needing the head planed - That could be result of the head not being properly torqued at the factory which lead to the head warping resulting in a leak where the surfaces didn't seal tightly. Planing the head would remove the warp and thus fix the leak.
The strong smell under the hood could simple be a result of grease getting on hot surfaces. If that is case it should end very soon.
The check engine light should be looked at right away - by a garage since it should still be under warranty.
Hope this is some help.
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