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I use MS Word so someone might be able to help better with BD's regex implementation. I admit I'm not very good with regex just some simple things but it's very powerful once you master it. Page numbers are just trying to find a pattern. it there isn't one that won't conflict with the numbers in the book you have a harder time. But it can be used to step through faster than scrolling.
You can also look out for font types or size changes and catch them that way - at least in Word I can not sure about BD. ie. It might have been a footer than now is in the main text but it is still 10pt instead 12pt and I'll just replace all 10pt font with a blank.
It's best to just try simple queries until you are confident it's doing what you think. In my examples in MS Word it uses ^13 for a return instead of \n or \r
^13([a-z])
The items in parenthesis become a variable you can use in the replace line. So the replace like would be " \1" without the quotes to add a space instead of a carriage return and then replace the first found letter back - you can have multiple variables per find line. This would attach a line like
The quick brown fox jumped over
the lazy dog.
The second example would be
([a-zA-Z])^13
which I would use "\1 " without the quotes as the replace line.
This would find:
Mark sat on the bench and asked
Tony what the time was.
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