If you're using the same hook location then you should probably just use one plugin. But if you want to use two for whatever reason, then you should set the execution order fields so that they run in the order you expect.
But if you've created a php file called oftw.php, then you may not need to use plugins at all, just put the code you need in the file. There's nothing magic about a plugin, it just lets you add code without editing the existing php files.
True although for what I am trying to accomplish it is better. I am trying to use javascript to load diferent content (within the OFTW template) inside a div. using this code for example:
So I can create a side menu and when clicking on one of the menu links the content on the right changes so I wanted to use plug ins so I won't have to write the entire code instead of just {vb:raw COFTW_FAQ}. This would make it easier to edit the content of each menu item. I know I can just have the content load non a different page but I am trying to have ti inline with JavaScript.