So who was the father of young John born 1861 
Not Edgar 
Edgar could still be the father if Edgar and Elizabeth were still a couple (of sorts) in late April 1860. John's birth looks to be very early 1861, or possibly late 1860, so the dates still fit.
Edgar WAS the father.
Elizabeth (my great x3 grandmother ... I am descended from Thomas) arrived at the workhouse in labour on 1 January 1861 ... so it was indeed VERY early in 1861. He was born on 1 January 1861 (and died in the workhouse before the year was out, poor mite) so he was conceived before she absconded for the third time.
What's always introgued me on this one is that as soon as Elizabeth was discharged from the workhouse, the very first thing she did was to go and register his birth ... in CLERKENWELL! (Discharge and registration both on 17 January 1861.)
Why oh why did she taken her baby across the river and go all the way to Clerkenwell to register his birth?
I can only think that she had no idea where to find the registrar in Southwark, but knew very well where to find the one in Clerkenwell.
Either way ... 17 January 1861 is the very last sighting I have of my great x3 grandmother Elizabeth Spooner nee Escott.
I'm still trying to figure out what became of her after that. I can give a very good account of the rest of Edgar's life (thanks to much amazing assistance given on this site) ... and of 15 of his 16 children (one still to be fully accounted for ... but we're getting there). But Elizabeth is still a mystery ...