The style guidelines of a conference request that all the equations in my
paper should be left-aligned instead of the usual centered. Is there an easy
way how to change the alignment of all equations in my document?

Type in 'fleqn' under the menu Layout->Document->Layout->Options. The indent can be set with the length mathindent.
You'll find a better explanation in the document LyXMathebefehle in chapter 17:
http://wiki.lyx.org/pmwiki.php/LyX/LyXMathebefehle

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