If you remove the duplicates in the library then you can try just using the Update Citations and Bibliography in Word to try to force EndNote to change the reference to all the same remaining record number.
If that does not change the numbers in Edit and Manage Citations then you will want to make a backup of the document and then use the following steps which can be found on our website:
When changes made to an EndNote library are not being reflected in your document, try to format the bibliography in the document. This may resolve the problem.
In some cases, though, it may not. This is because each formatted citation in your Word document contains hidden field codes that contain all the information about that reference as it was at the time it was inserted. To have EndNote pick up the changes you’ve made to the library’s references and apply that to your paper, you may need to unformat and then reformat as we describe below.
First, make a back-up of your document by saving it with a new name. Then unformat using the instructions for your versions of Word and EndNote:
Word 2013/2016 Win with EndNote X7: Go to the EndNote tab and choose the “Convert Citations and Bibliography > Convert to Unformatted Citations” command.
Word 2016 Mac with EndNote X7 and later: Go to the EndNote tab and choose the “Tools > Convert to Unformatted Citations” command.
Word 2010 with EndNote X4 and later or Word 2007 with Endnote X1 and later: Go to the EndNote tab and choose the “Convert Citations and Bibliography > Convert to Unformatted Citations” command.
Word 2007 with Endnote X and earlier: Go to the Add-Ins tab and choose the “EndNote > Unformat Citations” command.
Word 2008/2011 with EndNote X5 and later: Go to the Tools Menu and select “EndNote > Convert to Unformatted Citations” command.
Word X/2000/2002 (XP)/2003/2004/2008/2011: Go to the Tools Menu and select “EndNote > Unformat Citations” command.
This should revert all the citations into the temporary citation format and remove the reference list from the end of the document. Then, format the document. EndNote will pick up the reference information from your open library or libraries, and the changes will be picked up.
Please note that you may get the “EndNote Select Matching Reference” dialog box when formatting the bibliography. This may be because you have modified the author name or the year in one of the references, or you may be using a different library. Please use the link below
for information on how to resolve this.
If you still have trouble then contact Technical Support
or via the web