Bookmarks lead to wrong section/page

Question

I am new to LaTeX. I am currently writing my thesis with overleaf, and for some reason, the bookmarks generated automatically do not lead to the corresponding section. Here are a few major differences between the format of my thesis and a standard format of a thesis:

1. My university has a special format for the cover/title page. Which is in font Verdana. I manually created a pdf of my cover and title page and inserted it to my thesis instead of letting latex to generate one for me.

2. For summary, acknowledgements, table of contents, figures etc, my university requires roman page numbers, whereas for the main text, my university requires arabic page numbers.

3. For non-main text sections, my university does not allow a running title, but a running title is required for the main text.

4. That is why I used fancyhf to alternate between different page format. But unfortunately, other than my result section, all other sections in my file leads to my coverpage for some reason.

I have tried resolving it with \phantomsection \addcontentsline{toc}{section}{Summary} and\renewcommand{\summaryname}{Summary} based on answers from Links do not lead to right pages and Bookmarks linked to incorrect page, although bookmarks can lead to the right section, the section title is missed. Furthermore, I don't know if this method works for subsections and paragraphs.

May I please use your brain on this? Why the bookmarks in the result section is the only functional one? Thank you so much!

\usepackage{graphicx}
\usepackage{hyperref} 
\hypersetup{
    colorlinks=true,
    linkcolor=black,
    filecolor=magenta,
    urlcolor=black,
    citecolor=black,
}
\usepackage{bookmark}
\usepackage[english]{babel}
\usepackage[ansinew]{inputenc}
\usepackage{csquotes}
\usepackage[tocbib,bibnewpage]{apacite} 
\usepackage{multicol}
\usepackage{multirow}
\usepackage{booktabs}
\usepackage[table,xcdraw]{xcolor}
\usepackage{fancyhdr}
\usepackage{lineno}
\usepackage{amsmath}
\usepackage{setspace}
\usepackage{geometry}
\usepackage{pdfpages}
\usepackage{rotating} % <-- HERE
\usepackage{lscape}
\usepackage{caption}
\usepackage{ltablex}
\usepackage[referable]{threeparttablex}
\usepackage{threeparttable}[normal]
\usepackage{tabularx}
%\documentclass{article}
\usepackage{fontspec}%déjà chargé par luatextra
\defaultfontfeatures{Ligatures=TeX} % to have the automatics ligatures of TeX
\pagestyle{fancy}
\fancyhf{}
\rhead{\thepage}
\lhead{}
\fancypagestyle{main}{
\fancyhf{}
\lhead{\small\small THESIS}
\rhead{\thepage} 
}
\geometry{
    left=2.5cm,
    right=2.5cm,
    top=2.5cm,
    bottom=2.5cm
}
% only necessary to change shorttitle as it is part of the header
\title{title}
\shorttitle{THESIS}
\author{name}
\affiliation{XXX UNIVERSITY}
\course{Masterthesis}
\professor{professor}
\duedate{\today}
\usepackage{titlesec}
\titlespacing\section{0pt}{12pt plus 4pt minus 2pt}{0pt plus 2pt minus 2pt}
\titlespacing\subsection{0pt}{12pt plus 4pt minus 2pt}{0pt plus 2pt minus 2pt}
\titlespacing\subsubsection{0pt}{12pt plus 4pt minus 2pt}{0pt plus 2pt minus 2pt}


\begin{document}
\setstretch{1.5}  % 1.5 line spacing
\setromanfont{Verdana}
% --------------COVER------------------------
\thispagestyle{empty}
% --------------COVER PAGE------------------------
\begin{coverpage}
\includepdf{cover}
\end{coverpage}
%\vspace*{0cm}
% --------------BLANK PAGE------------------------
\clearpage\null\thispagestyle{empty}\clearpage
% --------------BLANK PAGE------------------------
\clearpage\null\thispagestyle{empty}\clearpage
% --------------BLANK PAGE------------------------
\clearpage\null\thispagestyle{empty}\clearpage
% --------------TITLE PAGE------------------------
% insert pdf due to special title page formatting
\begin{titlepage}
\includepdf{cover}
\end{titlepage}
% --------------BLANK PAGE------------------------
\clearpage\null\thispagestyle{empty}\clearpage
\clearpage
\setromanfont{Times New Roman}
\pagenumbering{Roman}
 \pagestyle{fancy}
\Some {\fontsize{11}{15}\selectfont % font size 11
 \setstretch{1.5}} % line spacing 1.5
\section{Summary}
\section{Acknowledgements}
\pdfbookmark[section]{\contentsname}{toc}
\renewcommand\contentsname{Table of Contents}
\tableofcontents
\phantomsection
\addcontentsline{toc}{section}{List of Tables}
\listoftables
\clearpage
\pagestyle{main}
\pagenumbering{arabic}
    \setcounter{page}{1}
    \pagestyle{main}
    %\fancyhf{}
    %\fancyhead[R]{\thepage}
   \setlength{\parskip}{0.1mm}
    \raggedbottom
    \nopagebreak
\section{1. Introduction}
\section{2. Methods}
\section{3. Results}
\section{4. Discussion}
\section{5. Conclusion}
\end{document}```