Using Linux Biolinum as the sans font in beamer leads to layout problems for several themes. This seems to be related to a bug in the font, since it does not provide the right x-value, see here. I am just wondering if there exists a work-around. I am using MikTeX and the latest libertine fonts.
Here is a MWE.
\documentclass{beamer}
\usetheme{CambridgeUS}
\usepackage{libertineotf}
\begin{document}
\section{Beamer}
\begin{frame}{Beamer}
\begin{enumerate}
\item test
\end{enumerate}
\end{frame}
\end{document}
Maybe these pictures help to clearify my problem. Without the libertine package everything is exactly where it should be.

But with libertine the header, footer are misplaced and the enumeration symbol is too small.

libertineotfpackage are you using? I'm unable to replicate the behavior you're illustrating when I run your MWE underxelatex(TeXLive2011, w/ latest versions of the Libertine fonts and of thelibertineotfpackage). However, the problem does surface when running the MWE underlualatex. – Mico Dec 22 '11 at 16:21\fontdimen5calculation. No idea how to fix it though, apart from editing the cached font(s) under~/.texlive2011/texmf-var/luatex-cache/generic/fonts/otf/, but this will get overwritten when the font changes (e.g. new version). I suggest you report this to Linux Libertine authors. – Khaled Hosny Dec 22 '11 at 17:32luatex. – maetra Dec 23 '11 at 21:21