%!TEX TS-program = xelatex
%!TEX encoding = UTF-8 Unicode

\documentclass{harvard-thesis}
\renewcommand{\contentsname}{CONTENTS}
\renewcommand{\listfigurename}{FIGURES}
\renewcommand{\listtablename}{TABLES}
\renewcommand{\appendixname}{Appendix}
\renewcommand{\appendixtocname}{Appendix}

\usepackage{apptools, etoolbox}

\renewcommand{\cftchappresnum}{Chapter }
\setlength{\cftchapnumwidth}{2em}% Just for this example

\let\oldappendix\appendix
\renewcommand{\appendix}{%
  \oldappendix
  \addtocontents{toc} % Update \cftchappresnum within the .toc
    {\protect\renewcommand{\protect\cftchappresnum}{Appendix }}
}

\usepackage{geometry}
\usepackage{tocloft,calc}

\AtBeginDocument{\addtolength\cftchapnumwidth{\widthof{\bfseries Chapter :}}}

\begin{document}
\addtocontents{lof}{\vskip 12pt}
\addtocontents{lot}{\vskip 12pt}

\input{frontmatter/coverpage}
\maketitle
\copyrightpage
\abstractpage
\dedicationpage
\tableofcontents %Double check!
\listoffigures
\addcontentsline{toc}{chapter}{Figures}
\listoftables
\addcontentsline{toc}{chapter}{Tables}
\newpage
\addcontentsline{toc}{chapter}{Acknowledgments}

\acknowledgments
\newgeometry{top=1in,bottom=1in,right=1in,left=1.5in}
\titleformat{\chapter}[display]
{\filcenter\normalfont}
{\fontsize{12pt}{45pt}\selectfont\MakeUppercase{\chaptername{}\space
 \if@chapnumwords\formatchapnum{chapter}
 \else\thechapter\fi}}
{-1em}
{\begingroup\triplespacing\fontsize{12pt}{36pt}\selectfont\MakeUppercase}
[\endgroup]

\titlespacing*{\chapter}{0pt}{0pt}{\baselineskip}
\renewcommand{\cftchappresnum}{Chapter }
\include{chapters/chapter1test}

\renewcommand\chaptername{Appendix}
\renewcommand\thechapter{\Alph{chapter}}
\renewcommand\thesection{\Alph{chapter}.\Roman{section}}
\setcounter{chapter}{0}

\appendix

\include{appendices/appendixA}

\singlespacing

\clearpage
\bibliography{references}
\addcontentsline{toc}{chapter}{Bibliography}
\bibliographystyle{achemso}
\end{document}