In Notepad++, there is an "EOL Conversion" option which can change the EOL of a file from Windows into Unix format. Does Source Insight provide the similar feature which can convert a file or a bunch of files in batch?
The following answer is from Source Insight support:
To save a file with a specific end-of-line type in Source Insight, select File > Save As..., then where it says "Save as type", select the desired end-of-line type.
To set the end-of-line type for new files you create in Source Insight, select Options > Preferences and click the Files tab. Where it says "Default file format" select the desired end-of-line type.