Technically the 2500 litres is only if you PRODUCE the fuel, not buy it.
So if you fill up at a filling station, it SHOULD be duty paid.
Unlike red diesel though, there is no way of knowing if you paid the duty or not.
So what I could do for example, if I wanted to avoid paying tax (obviously I dont wish to do this, I really do LOVE paying tax on money I got taxed on earning and my employer got taxed for giving to me) is to go to my local biodiesel place and fill up 1 container with 20L of "duty paid biodiesel"
Then fill up as many 20L containers as I can lay my hands on with "non duty paid biodiesel"
Given that all the containers are identical, and all the fuel is identical, that gives me the right to put any ONE of them in my tank, so if I ever get stopped then thats the one I just happened to have poured in that day obviously officer.
This is where it differs from red diesel, if you did the same, then the 1 tank of non duty paid would be clear and the others would be red, and hence you would be instantly spotted using the non duty paid stuff.
The government must be hoping that not many people realise this!