I’m a huge fan of Text Monkey, a small program which allows you to clean up text copied from elsewhere. It’s a godsend, but it’s not the only one out there. Text Cleanup does the same thing, but also cleans up Acrobat PDF files, particularly
all the extra line breaks that Acrobat puts in, and restor[ing] the paragraphs to what they were originally.
Text Cleanup costs $25. Text Monkey Pro costs $30 but also comes in a lite version for free, with many of the features of the fully paid up version.