Hey Jools welcome to a great site for authors - because this is a place where modern readers hang out.
Being in the same position I asked that same question a little while back. Read through the thread it covers more than you want to know.
In a nutshell for Smashwords leave it as is left justify (there isn't a way to not have it justified - savvy ereaders will take care of how they want to read it). For Kindle go with fully justified, and watch out for the BIG spaces.
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