Only if he knows we exist and he can do anything about it.
First he's got to deal with the Prophet then he's got to manage the aftermath, and then there's Vect with the disruption to Abbys domain coming from billions of narcissistic maniacs suddenly wanting their own piece of the pie, then the Nids, then the Dragon and of course Vulkan will still be in the back ground.
Basically I think fears that Abaddon will come after us are unfounded given the tidal wave of crap heading his direction in the next century or so.
There's no size we can reach which is big enough to be safe from Abaddon should he decide he wants to kill us, none, so he should barely be a consideration at this point.
I should point out that even combined with the Dragons Nest we will be trivially easy to crush and plunder for Abaddon as an afterthought. He probably doesn't even need to use more than a chapters worth of his own resources, offering all our Chaotic neighbors rank and favor in his Empire would be enough to get them to unite against us, and i doubt we can win against More'lumix, Amir'ka, Assour and the Nexx at the same time.
We should consider Abaddon, mainly in that we need to make sure he does not know about us, because as you rightly point out, we cannot grow quickly enough to not die if he decides to attack us. Therefore, not participating in these tech exchanges unless Ridcully and the Eldar can make sure we stay unnoticed is incredibly important.