I have never minded the Alien aspect of the story. The Gophers are just a throw away shot and I have always liked the nuked fridge part. Sure it's over the top but so is a 60 year old professor beating up russian soldiers.
No what I can not forgive the film for is the AWFUL acting, the Awful use of cgi, Awful unfunny humour, Monkey swings, monkey swings into jeeps, Marion driving the truck off the cliff..... on purpose..... to land on a tree..... on purpose..... to fall slowly in the water.....on purpose... and then to look back at everyone and smile because she knew it all along. This was worse then the monkey swing IMO. The quicksand scene was right out of a bad sit com with it's poor acting, directing, and script. Bad villians and bad allies.. Jonesy!!!!!!
Film is just bad for so many reasons. If Steven Spielberg fails to see that then I don't have much hope for the next film.