If you want to mark the areas where the quoted text was with a footnote reference and use the quoted text as the reference text you cannot do this with Find and Replace. You can do it with a macro e.g. as follows
http://www.gmayor.com/installing_macro.htm but the macro may have problems distinguishing between single quotes and apostrophes. See how you get on with the macro on a COPY of the document.
The macro assumes straight quotes rather than smart quotes.
Code:
Sub ReplaceWithFootnotes()
'Macro by G Mayor 22 May 2015
Dim oRng As Range
Dim strNote As String
Set oRng = ActiveDocument.Range
With oRng.Find
Do While .Execute(FindText:="[!A-Za-z0-9]'[A-Za-z0-9]", _
MatchWildcards:=True)
oRng.MoveEndUntil Chr(39)
oRng.End = oRng.End + 1
strNote = Replace(oRng.Text, Chr(39), "")
oRng.Text = ""
ActiveDocument.Footnotes.Add oRng, , strNote
oRng.Collapse 0
Loop
End With
lbl_Exit:
Set oRng = Nothing
Exit Sub
End Sub