stratosg

Writing a post with footnotes has never been easier and cleaner before. All you need to do is anchor a footnote at any point and then write it on the end of the paragraph or wherever it fits you.
Usage
To anchor a footnote use the {{FOOTNOTE_NUMBER}}. Then to write the body of it you need to embrace it with [[FOOTNOTE_NUMBER]]. Here is an example:
—— document starts here ——- 
Lorem ipsum dolor sit amet, con sectetuer adipiscing elit, sed diam 
tempor incidunt ut labore et dolore magna ali quarn erat volupat.{{1}} 
venian, quis nostrud exerci tation ullamcorper{{2}} suscipit laboris 
commodo consequat. Duis autem vel eum irure dolore
[[1]]This is the first footnote.[[1]] 
[[2]]This is the second footnote.[[2]]
This is the next paragraph. Lorem ipsum dolor sit amet, con sectetuer 
adipiscing elit, sed diam nonnumy nibh euismod tempor incidunt ut 
labore et dolore magna ali quarn erat volupat. Ut wisi enim ad minim. 
—— document ends here ———
When the document is parsed, the footnotes that are between paragraphs will be removed from where they are and placed at the end of the document. The {{1}} will be replaced with an anchor link to the footnote. The footnotes will be a list having and anchor link back to the place the text has it. Here is what roughly the above text will look like after parsing:
—— document starts here ——- 
Lorem ipsum dolor sit amet, con sectetuer adipiscing elit, sed diam 
tempor incidunt ut labore et dolore magna ali quarn erat volupat.[1] 
venian, quis nostrud exerci tation ullamcorper[2] suscipit laboris 
commodo consequat. Duis autem vel eum irure dolore
This is the next paragraph. Lorem ipsum dolor sit amet, con sectetuer 
adipiscing elit, sed diam nonnumy nibh euismod tempor incidunt ut 
labore et dolore magna ali quarn erat volupat. Ut wisi enim ad minim.
FOOTNOTES 
1. This is the first footnote. 
2. This is the second footnote. 
—— document ends here ———
The up arrows and the [1] and [2] are the links. There are a few options that you can tweak, for now it’s in the code. Please refer to the plugin’s homepage at: http://www.stratos.me/wp-plugins/yafootnotes
<h3>Requirements</h3>
None what so ever…
<h3>Credits</h3>
Mr. Mike Nichols from http://anxietypanichealth.com/ inspired me, motivated me and helped me debug.
<h3>Contact</h3>
Suggestion, fixes, rants, congratulations, gifts etc to stratosg@stratosector.net 
Also visit the plugin’s page at http://www.stratos.me/wp-plugins/yafootnotes/

YAFootnotes

Yet Another Footnotes (YAFootnotes) is a plugin that gives you the ability to add footnotes to any text you are writing.

C. Johnson

Footnotes for WordPress is a simple plugin designed with a simple aim in mind: to make 
it dead-easy to include decently-formatted footnotes in posts and pages on your 
WordPress blog.
The syntax is roughly based on the common MediaWiki syntax for footnotes, but uses the 
WordPress shortcode conventions. So, to include a footnote with the text “Text,” you use:
<pre><code>This is footnoted.[ref]Text[/ref]
</code></pre>
And that’s all you need to do. When you add a footnote, Footnotes for WordPress will 
create a note marker at the point that the foonote appears in the text, and includes 
the text of the footnote in a styled list of notes down the page. When a reader clicks 
on the link in a JavaScript-enabled browser, a script included with the plugin will 
create a small bubble inline in the text, which pops up over the footnote marker for 
easy reading without losing their place. In non-JavaScript-enabled contexts, clicking 
on the footnote marker jumps down the page to the text of the note.
The jump is based on an unique anchor which the plugin can automatically generate for 
you. However, if you want to create a specific ID of your own for the footnote, you 
can do so using the <code>name="..."</code> attribute:
<pre><code>This is footnoted.[ref name="my-unique-id-1"]Text[/ref]
</code></pre>
If you define an ID for a footnote, you can also refer back to the same footnote 
later on in the document, using the <code>[backref name="..."]</code> shortcode.
<pre><code>This is footnoted.[ref name="source1"]Source 1[/ref]

So is this.[ref name="source2"]Source[/ref]

And this one comes from the same source as the first.[backref name="source1"]
</code></pre>
Footnotes are numbered, beginning at 1. However, you can change the numbering if you 
so desire using the <code>number="..."</code> attribute. For example, I often use this when 
quoting from a book that contains footnotes or endnotes, in order to represent the 
notes used by the original text.
<pre><code>This is footnoted, but footnotes begin at number 42.[ref number="42"]...[/ref]
</code></pre>
You can change the text that is displayed in the note’s superscripted link from the 
note’s number to any text or symbol that you choose using the <code>superscript="..."</code> 
attribute. For example, to use an asterisk instead of the note number:
<pre><code>This is footnoted with a good old asterisk.[ref superscript="*"]...[/ref]
</code></pre>
By default, the list of footnotes appears at the bottom of the post. However, if you 
wish them to appear somewhere above the bottom of the post, for formatting or other 
reasons, you can do so using the <code>[references/]</code> shortcode:
<pre><code>This is footnoted.[ref]Text[/ref]

As are some[ref]Text[/ref] other things.

[references/]

See also: Endnotes.
</code></pre>
Which will cause the two footnotes to appear beneath the second paragraph but above 
the “See also:” text.
<h3>Usage</h3>
<ul>
<li>
To create a footnote, use <code>[ref]...[/ref]</code> to wrap the text of your note.
Example: <code>This is footnoted.[ref]This is the text of the of the footnote.[/ref]</code>
</li>
<li>
Normally footnotes use numbered superscripts to indicate the footnote, beginning 
with 1. You can choose to use symbols instead, like *, **, †, etc. To use custom 
text for a footnote’s superscript, use <code>[ref superscript="*"]...[/ref]</code>, and 
replace the asterisk with whatever symbol or text you want to use.
</li>
<li>
Normally footnotes begin at 1 and count up towards infinity. If you want to use 
numbered subscripts but need to reset the number they count from, use the <code>number</code> 
attribute. For example, if you want the current subscript to be numbered 128, and 
for subsequent subscripts to be numbered 129, 130, etc., use: 
 [ref number=”128″]…[/ref].
</li>
<li>
To create a footnote with a specific unique ID, instead of the one that the plugin 
will automatically generate for you, use <code>[ref name="..."]...[/ref]</code>
Example: <code>This is footnoted.[ref name="my-unique-id"]This is the note text.[/ref]</code>
</li>
<li>
If you define an ID for a footnote, you can also refer back to the same 
footnote later on in the document, using the <code>[backref name="..."]</code> 
shortcode.
This is footnoted.[ref name=”source1″]Source 1[/ref]
So is this.[ref name=”source2″]Source[/ref]
And this one comes from the same source as the first.[backref name=”source1″]
</li>
<li>
To force the plugin to display notes at a different location instead of at the bottom 
of the post, use <code>[references/]</code>
Example:
This is footnoted.[ref]Text[/ref]
As are some[ref]Text[/ref] other things.
[references/]
See also: Endnotes.
</li>
<li>
If you wish to change how footnotes are styled, you can alter them in your 
WordPress theme stylesheet, or using JavaScript. The default elements and 
classes are <code><a class="footnoted"></code> for superscript links to footnotes,
</li>
</ul>
<
ol class=”footnotes”> for the list of references, and
<li> for each individual footnote. So, for example, to 
 display footnotes at the bottom in a simple list, rather than in individual 
 boxes with “Note” headers, add the following line to your Theme stylesheet:</li>

<pre><code> ol.footnotes li {
 background: transparent !important;
 padding: 0px !important;
 border: none !important;
 margin: 0.5em 2em !important;
 }

The use of `!important` will ensure that it overrides the default styles
set up by the plugin.
</code></pre>
<ul>
<li>
Alternatively, if you want to change the CSS class which is applied to to 
the footnotes list, you can do so using the <code>class</code> parameter on 
 [references/]:
<pre><code>This is a test.[ref]Lewis (2000).[/ref]

<h3>Notes</h3>

[references class="compact" /]
</code></pre>
… which will produce the following HTML:
<pre><code>This is a test.[<a href="#test-n-1" class="footnoted"
id="to-test-n-1">1</a>]

<h3>Notes</h3>
<ol class="compact">
<li class="footnote" id="test-n-1">[1] Lewis
(2000). <a class="note-return" href="#to-test-n-1">↩</a></li
></ol>
</code></pre>
Since the default styling is based on children of <code>ol.footnotes</code>, those 
styles will not apply, and you can apply whatever styles you wish to the 
class that you’ve created.
<h3>Changes from version 2010.0309 to version 2010.0822</h3>
</li>
<li>
Added <code>[backref name="..." /]</code> shortcode allowing you to refer back to a note with an established name
</li>
<li>
Eliminated a bug which caused duplicate IDs if you tried to set up multiple sections of footnotes in the same post using repeated <code>[references/]</code> codes.
</li>
<li>
Added <code>[references class="foo" /]</code> syntax, allowing user to supply their own class for CSS re-styling purposes.
</li>
<li>
Tested for and verified compatibility up to WordPress 3.0.1 and WordPress trunk.
</li>
</ul>
<h3>Changes from version 2010.0306 to version 2010.0309</h3>
<ul>
<li>Eliminates a harmless but potentially annoying source of “Missing argument” warnings from PHP</li>
</ul>

Footnotes for WordPress

Footnotes for WordPress enables easy-to-use fancy footnotes for WordPress posts.

YAFootnotes vs Footnotes for WordPress