Citations using biblatex together with Tufte style are producing weird results

Question

I'm having some problems with the citations in the Tufte class. I have several questions related to this which i will post below, but first i will provide a minimum working example, test.tex:

\documentclass[nohyper,nobib,nofonts]{tufte-book}

\usepackage[utf8]{inputenc}  
\usepackage[american]{babel}  
\usepackage[backend=bibtex]{biblatex}  
\addbibresource{testBib.bib}  
\usepackage{hyphenat}  
\usepackage{csquotes}  

\begin{document}

\chapter{chapter}  
Some text~\autocite{bobylev}.  
\section{section}  
Lots and lots of more text~\autocite{Zhong}.  
\subsection{subsection}  
Delicious yummy text~\autocite{xu2004}. OmNomNom~\autocite{Lockerby}.

\printbibliography

\end{document}

And a simple bibliography testBib.bib:

@article{bobylev,
 author = {Bobylev, A. V.},
 title = {The Chapman–Enskog and Grad methods for solving the
 Boltzmann equations},
 journaltitle = {Soviet Physics - Doklady},
 number = {27},
 year = {1982}
}

@article{Zhong,
 author = {X. Zhong, R.W. Maccormack and  D.R. Chapman},
 title = {Stabilization of the Burnett equations and application to high-altitude     hypersonic flows},
 journaltitle = {AIAA Journal},
 year = {1993}
}

@article{Lockerby,
 title = "High-resolution Burnett simulations of micro Couette flow and heat transfer ",
 journaltitle = "Journal of Computational Physics ",
 year = "2003",
 author = "Lockerby, D.A. and Reese J.M."
}

@article{xu2004,
  title={Microchannel flow in the slip regime: gas-kinetic BGK--Burnett solutions},
  author={Xu, K. and Li, Z.},
  journaltitle={Journal of Fluid Mechanics},
  year={2004}
}

Which produces the following:

In order to get numbered chapters, sections and subsection (not default in tufte-book class) i've done the following changes to tufte-common.def, changed

\setcounter{secnumdepth}{-1}

to

\setcounter{secnumdepth}{2}

and added

\setcounter{tocdepth}{2}

All of this compiles "fine", but produces the following errors and warnings

Questions:

1. The errors seems to have something to do with the changes i made in tufte-common.def, but how else to achieve numbered chapters, sections and subsections?
2. Why doesn't the contents show sections and subsections, isn't that what \setcounter{tocdepth}{2} does?
3. I have to manually delete the test.bbl and test-blx.bib files or add a new entry to the bibTest.bib file to update the bibliography, i.e. changes I've done in the .bib file won't show unless i do this. That can't be right can it?
4. The bibliography is not ordered in the order they are cited and vice versa, I would prefer that the first citation in my text appear as [1], the second number as [2] etc. Not the way they do now, [1],[3],[2],[4]. I know that biblatex has options for sorting and different cite styles, but non of my efforts has yielded the results I'm looking for. Surely there must be a way to achieve references ordered in ascending order? I've also tried using baceknd=biber but that only produces more error messages.
5. Does anyone have any experience with the warning? Interpretations and ideally a way to fix them.

Additional information: Using tufte-book class v3.5.0, MiKTeX 2.9 and Sublime Text 2.0.2 as text editor.

I realize this is a rather long post with many questions so I will be very grateful for answers to any or all of my questions :)

Answer 1

Your example compiles fine, despite the erros, with the following (you may have forgotten \tableofcontents):

\documentclass[nobib]{tufte-book}
\usepackage[backend=bibtex,style=numeric,sorting=none]{biblatex}  
\addbibresource{testBib.bib}    


\setcounter{secnumdepth}{2}

\setcounter{tocdepth}{2}


\title{A simple document}
\author{An author}



\begin{document}


\maketitle

\tableofcontents


\chapter{chapter}  
Some text~\cite{bobylev}.  

\section{section}  
Lots and lots of more text~\cite{Zhong}.  
\subsection{subsection}  
Delicious yummy text~\cite{xu2004}. OmNomNom~\cite{Lockerby}.

\printbibliography

\end{document}

It seems that natbib, which Tufte classes use, is incompatible with biblatex, so that the error messages will not go away, although it compiles fine (see this).

As to your question #4, sorting=none does the trick.