I am a bit lost. I know exactly how the Baker ejectors work but I don't know what those pins are for. Each side only has 3 components -
1) the ejector box, which is visible in the photo above and also acts as the ejector tripper.
2) the ejector kicker, which is the bit that strikes the end of the extractors. This also has a spring guide (tail) attached which runs nearly the length of the ejector box.
3) the spring, which is enclosed within the box and around the tail of the ejector kicker.
Where were those pins located?
There is an explanation here
https://www.vintageguns.co.uk/magazine/the-baker-ejectorSince you have the forend iron off, it is very easy to disassemble the ejectors. You just have to drive the cross-pin out that the ejector boxes pivot on and carefully push them out, keeping in mind that they are under tension.
Keep the pictures coming and we will collectively get this sorted out...