We have spent a LOT of time looking at a LOT of documents and have made Numbering and Indentation as easy as it can be.  For most purposes, you won't need to do anything to get great looking, easily readable and easily referenced clauses. You can get this right out of the box simply by leaving your Theme alone.  
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By default, it will indent text at 1 cm per level of depth, stepping uniformly towards the right as you go.

If that works for your stuff, read no more.  Just use a <<<RESET>>> Special Token each time you want to start over (reset) to "1" again.
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If you like this uniformity, but want steps of more than 1 cm, you can increase this to 1.1 or 1.4 as required, but if you set it below 1, it will collapse down to a single indent level for all items so that we can protect the space required for the numbering.  

Also be careful of going too large, as you will run out of space for content!
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If you ONLY want to change the format of the numbering, for example in the above case changing Level 2 from a lowercase a) to an UPPERCASE A) you can give the <<<RESET>>> Special Token more information:

Each Level's settings sit between pipes | |  In this case Level 1 will be a number (decimal) and will show the first level number - %1 - followed by a full stop.  Then Level 2 will show the second level number - %2 - followed by a right parenthesis.  And of course Level 3 will be lowercase roman numerals representing third level numbers - %3 - followed by a full stop.

You can go a step further to making your numbers look different by setting a Font.

When you want different indentation than what the default gives you, you can give the <<<RESET>>> Special Token two more pieces of information for each level in your Numbering system: "Indent" and "Space for #".

Below is an example of what you will see in your list based on the <<<RESET>>> Special Token shown.  Notice each Level's "Indent" and "Space for #" are colour-coded to make it clear which is which.

Pay special attention to Level 1 - in this example the text is not Indented at all (set to zero) and the "Space for #" pushes into the Margin without having to deal with negative numbers.

That's because Automio treats Indent as Text Indent - you first decide where you want your actual content to line up, then you set how much room to reserve on the left for the numbering.  We find this easier than dealing with "Left" and "Hanging" because the star of the show is the content, not the numbering, which is really just a decoration to help us reference content.