I was having issues getting the .htaccess file to show up in the files window in Aptana. I went to Window->Preferences but there was no clue about fixing it. But here is the solution.

1. In the "Navigator" view or "Project Explorer" view, look at the top of the view and you'll see a small triangle/arrow pointing downwards.
2. Left-click this triangle and select the "Filters..." menu option.
3. In the resulting popup window, uncheck the ".* resources" filter. Once this has been applied all .* files such as .htaccess will be shown