There are basically three ways that this can be done:

1. Merge all the chapters together and format as a single large document.

• Insert citations into each of the chapters, and then use (Word 2003 or on a Mac) the Unformat Citation(s) icon in Word's EndNote toolbar; or (Word 2007 or 2010) Convert Citations and Bibliography and Convert to Unformatted Citations to remove their separate bibliographies.
• Merge all the unformatted chapters together so that you have one large Word document.
• Finally, use (Word 2003 or on a Mac) the Format Bibliography icon; or (Word 2007 or 2010 ) Update Citations and Bibliography to format the in-text citations and create the single bibliography at the end of the document.
• Disadvantages of this method are that the large Word document can be very large; and merging different Word documents can sometimes require lots of tidying up.

2. Format each chapter separately, but use a printout of your reference library as the bibliography.

• For each chapter, insert citations and (Word 2003 or on a Mac) Format Bibliography; or (Word 2007 or 2010) Update Citations and Bibliography.
• Use (Word 2003 or on a Mac) the Remove Field Codes icon; or (Word 2007 or 2010 ) Convert Citations and Bibliography and Convert to Plain Text to create a plain Word copy of each chapter.
• Delete the bibliographies of each of the plain Word copies.
• Then create a Word copy of your reference library in your chosen reference style and delete any references you haven't cited in the chapters.
• Disadvatages of this method are that if you're not careful the references in the bibliography may not exactly match those cited in the chapters. Also, the bibliography is in Rich Text Format which may need some work to make it look right.

3. Use Word's Master Document feature.

• Using Master Document is described in the EndNote manuals.
• This is probably the best method if you are comfortable with it, but it has the disadvantage of also being the most complex.
• The University of Portsmouth (UK) has a nice guide on this Linking EndNote and Word
• Be warned that apparently Master Documents corrupt easily: so always keep backup copies of each chapter elsewhere. How to recover a Master Document.