Thank you all for your help. I found that -f markdown+hard_line_breaks 
worked!

On Thursday, January 18, 2018 at 3:08:38 PM UTC-5, Serena De Stefani wrote:
>
> I am using Pandoc to integrate Scrivener with Zotero. I write in Scrivener 
> adding the Zotero citation keys, compile a .txt file, then use Pandoc to 
> convert the .txt file into a Word file in which the citation keys are 
> effectively translated in my preferred citation style (APA in this case). 
> Following the instructions on this 
> <https://davepwsmith.github.io/academic-scrivener-howto/> webpage, I also 
> set up "Marked 2" to show the output of what I was writing in Scrivener 
> using markdown.
>
> Here comes the problem: newlines.
> If I write in Scrivener:
>
>     I want a newline after this.
>     This should be a newline.
>
> then Marked 2 is showing:
>
>     I want a newline after this. This should be a newline.
>
> So then I wrote in Scrivener:
>
>     I want a newline after this.<br>
>     This should be a newline.
>
> Marked 2:
>
>     I want a newline after this.
>     This should be a newline.
>
> Great! Now I compile into a .txt file and I get:
>
>     I want a newline after this.<br>
>     This should be a newline.
>
> OK, now it is time to use Pandoc.
>
> I type the following command into the terminal:
>
>     pandoc -s -S --normalize --bibliography  
>     ~/Dropbox/_Research/Master_Thesis/Master.bib --csl 
>     ~/Dropbox/_Research/apa.csl 
>     -f markdown -t docx -o trial.docx /Users/S/Desktop/test_st.txt
>
> I get my .docx file (and when I do this with a full document, all my 
> citations are there, so that works!), but then I read:
>
>     I want a newline after this. This should be a newline.
>
> Note that the <br> that was present in the .txt file is gone, but still I 
> did not get a newline.
>

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