Mechjeb landing is having some problems for me

[Isuckatrocketscience]

So I am trying to recreate SpaceX stuff. My main problem I keep encountering is with the landing system.  If i use the starship expanded mod, when i try to land the super heavy, it lands, but it lands like almost a kilometer off target. When i use anything from the SpaceX pack like the falcon 9, it just doesn't even use the engines until like 3 three seconds before touchdown. Is Mechjeb having a problem, am I being stupid, or is it something else. and just to try and help, i land by selecting a launch pad or drone ship with the select target on map option, and deactivate everything except for the auto warp.  I do have ample power but i do not know. Am I missing something?

[Gargamel]

Moved to mod discussion 

[Cheesecake]

Landing exactly on a pad with Mechjeb is almost impossible. Mechjeb is not really good for that. Here you should rather use kos. There are some scripts that can do that.