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I am wondering if it is possible to have two separate instances of Textpad open at the same time. I believe that I used to be able to do this with an older version, but now each file that I open just opens in a different window. The reason I ask is that I like to alt+tab between documents and I cannot do that when they open in separate windows. Thanks!

Choose Configure->Preferences from the menu then select "General" unless already active. Then you can check "Allow multiple instances to run" if you want to be able to start more then one session of textpad. Uncheck will do the opposite. Also you can start textpad from command line using the "-m" parameter that will always start a new instance of textpad no matter what the settings are.
If you want to start a new instance of textpad each time you doubleclick on a associated filetype you could manage that as well making some changes to the registry.
Also if you just want the ALT-TAB to switch between two documents in textpad you could use CTLR-TAB instead to switch between the open documents using only a single instance of textpad as well.