If you want more control over the process, click on the Options button prior to clicking Scan. One of the options is "Save text to file," which will place the scanned text into a text file instead of directly pasting it into an application.
A good piece of advice is to spell check the pasted text using the spell checking function of a word processing package such a Microsoft Word prior to scanning additional pages. If you need to scan many pages of a document, it is better to check over the scanned text while you have a hard copy on front of you for comparison. A spell check will turn up most of the words where OmniPage identified the wrong letter or placed a tilde instead of a letter.