If you want different formatting for an "Acknowledgments" section, just define it as you like; for instance
\newcommand{\acknowledgments}{%
\cleardoublepage
\vspace*{0pt}% the margin from the top
\phantomsection % if you use hyperref
\addcontentsline{toc}{chapter}{\acknowledgmentsname} % if you want it in the TOC
{\centering\bfseries\Large \acknowledgmentsname\par}
\vspace*{\bigskipamount}% vertical space between title and text
\noindent\ignorespaces % omit this line if you want to indent the first paragraph
}
\newcommand{\acknowledgmentsname}{Acknowledgments} % or whatever
% If babel is loaded, use also the following for the language
% in which the section is written; for instance
% \addto\captionsitalian{\renewcommand{\acknowledgmentsname}{Ringraziamenti}}
Then at the appropriate spot, issue
\acknowledgments
Change the formatting as you please. But, in my opinion, this should be a chapter like all the others (possibly not using fncychap
, but this is personal opinion).