PDF contains incorrect bookmark hierarchy

The package hyperref should be loaded as last package. See:

Which packages should be loaded after hyperref instead of before?

The package subfigure is obsolete, instead use subcaption or subfig.

How to keep up with packages and know which ones are obsolete?

With the following header I have no problems:

\documentclass[a4paper,oneside]{report}
\usepackage[a4paper]{geometry}
\usepackage[dutch,english]{babel}
\usepackage{subfigure}
\usepackage{graphicx}
\usepackage{lscape}
\usepackage[font={it,sf},labelfont=bf]{caption}
\usepackage[usenames,dvipsnames]{xcolor}

\usepackage[colorlinks=true,linkcolor=black,citecolor=red,urlcolor=red]{hyperref}

---

EDIT

After you add your file list and was able to compare the versions of hyperref.

I am using:

hyperref.sty    2012/05/13 v6.82q Hypertext links for LaTeX

and you are using:

hyperref.sty    2010/03/30 v6.80u Hypertext links for LaTeX

You can see you need an update of your LaTeX distribution.

---

EDIT 2

Based on the new information the problems based on the setting of:

\setcounter{chapter}{0}
\renewcommand{\thechapter}{\Alph{chapter}}

This isn't really unexpected. At this point hyperref finds every chapter twice and you get the warning:

pdfTeX warning (ext4): destination with the same identifier

To solve this you must redefine \theHchapter in a suitable way. Here a suggestion:

\setcounter{chapter}{0}
\renewcommand{\theHchapter}{\Alph{chapter}}
\renewcommand{\thechapter}{\Alph{chapter}}

An other hint: If you compile with XeLaTeX you can't work with the unit px.
_{I don't know why}

Finally the complete example:

\documentclass[a4paper,oneside]{report}
\usepackage[a4paper]{geometry}
\usepackage[dutch,english]{babel}
\usepackage{subfigure}
\usepackage{graphicx}
\usepackage{lscape}
\usepackage[font={it,sf},labelfont=bf]{caption}
\usepackage[usenames,dvipsnames]{xcolor}

\usepackage[colorlinks=true,linkcolor=black,citecolor=red,urlcolor=red,plainpages=false,pdfpagelabels=true]{hyperref}
\title{AAA}
\author{AAA}
\date{AAA}

\begin{document}
\maketitle

\null
\vfill
\thispagestyle{empty}

\abstract

\chapter*{Introduction}
\addtolength{\parskip}{10pt}
\setlength{\parindent}{0cm}
\pagenumbering{roman}

\newpage
\selectlanguage{english}
\addtolength{\parskip}{-10pt}
\tableofcontents

\addtolength{\parskip}{10pt}
\chapter{A}
\pagenumbering{arabic}

\section{AA}


\subsection{AAA}


\subsection{AAB}


\section{AB}


\section{AC}


\subsection{ACA}


\subsection{ACB}


\section{AD}


\newpage
\section{AE}


\chapter{B}

\section{BA}


\section{BB}


\subsection{BBA}


\section{BC}


\subsection{BCA}


\section{BD}


\subsection{BDA}


\subsection{BDB}


\subsection{BDC}


\section{BE}

\chapter{C}

\setcounter{chapter}{0}
\renewcommand{\theHchapter}{\Alph{chapter}}
\renewcommand{\thechapter}{\Alph{chapter}}
\chapter{D}
\selectlanguage{dutch}
\section{DA}

\subsection{DAA}


\subsection{DAB}


\subsection{DAC}


\subsection{DAD}


\subsection{DAE}


\subsection{DAF}


\subsection{DAG}

\newpage
\bibliographystyle{plain}

\end{document}