try to kill the penguins off first then when the drill boss slams into the wall and gets stuck there for a minute, jump on top of the machine and do the slam down jump on top of it. it took me about three or four of those jumps to kill it off.
i think this is the scene you are talking about!

to defete the drill just keep on jumping about!But try to avoid the machine hiting you okay!And to defete the penguins just keep on pressing the atack key . Thats how i defeted them rascals!

you have to kill all mechanical penguins first.then he will try and hit you.avoid it .he will then get stuck in the wall. jump ontop of him and pound.once done he will back up and try to hit you with flames.go behind him and let him push you back. he will start turning and penguins will come. kill them.but this time he will try to shoot you with missiles.dodge them.then what i just said will happen again. after th second time when the penguins pop up there will be ones that shot fire.try to kill them first.he will try to shoot you with two missiles this time.but after you kill the last mechanical pengui he will drill again.but this time once you pound him he will throw the remote out of the drill and you beat him. it took me three times to beat him.