If you primarily use the \pause command to control the when objects appear in a Beamer presentation, you may have encountered some problems where footnotes appear before they are supposed.
A minimal working example:
\begin{itemize}
\item Mary had a little lamb
\pause
\item Humpty Dumpty sat on a wall\footnote{be careful when you sit on walls}
\pause
\item ABCDEFG
\end{itemize}
The footnote associated with bullet-point 2 did not wait for the second bullet point to appear. It was present from the very first slide. The \only tag provides an easy way out.
\begin{itemize}
\item Mary had a little lamb
\pause
\item Humpty Dumpty sat on a wall\only<2->2->\footnote{be careful when you sit on walls}
\pause
\item ABCDEFG
\end{itemize}
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