This issue probably can occur if the font information is coming from the last line before the bibliography gets created. The easiest way to fix this is to unformat the document, add an extra line with a plain font and no formatting then format the bibliography again.
First make a backup copy of the document then please follow these instructions:
- In Word 2010, go to the EndNote tab and use the pull down for Convert Citations and Bibliography>Convert to Unformatted Citations.
- Go to the last page of the document and make sure the bibliography has been removed.
- Remove any extra lines, carriage returns or spaces after the last character in your paper.
- Press Enter at the end of the last line in your paper to add one additional line.
- Press space once on your keyboard to create a single space.
- Highlight the space and make sure the font settings are to the size, type and formatting you want your bibliography to be.
- Go to the EndNote tab and click the small arrow at the bottom right of the middle box labeled Bibliography.
- Click the Instant Formatting tab and click Turn On. Click Ok.
This will help you to resolve the issue, however if the above steps did not help, then please follow the steps below to modify the Styles settings in Word. By modifying this setting, you can the align references as required.
- In Word 2010, go to Home tab and use the pull down for Styles > Click on ‘EndNote Bibliography’ and then click on the drop down arrow . Choose Modify.
- Under Formatting, choose the required alignment and click OK. I have attached a screenshot for your reference.