Hi again Conrad:
Can you flip the block so the exit side becomes the entry side?
If so, you can control the features you care about much better since they appear to be most critical on the exit side.
Do you have 1 mm endmills and ball cutters?
If you do, you can poke in your flats as Bill Zweig suggests, then poke in your ball cutter to get the hole spotted, then drill a twitch undersized then clock in your 1 mm endmill than gently gently pop it in and see what kind of hole you get.
If you have access to a cutter grinder you can also make a 3 flute boring tool and pop it in with that.(like a stubby reamer but with no corner chamfers)
Make it a bit undersized and you can try it out to see your location before you commit to final size.
The proper way forward if you care most about the relationship of the two holes is to finish one first, and that then becomes your datum hole.
Now you can screw around with tenths clocks on the axes to diddle the second hole into position.
Being able to interrogate without dismounting or moving things helps you.
A copper banger smacked gently onto the saddle or the X axis slide to tweak the last tenths out of an axis movement helps you too.
Nipping the quill clamp until you can just float the quill without slop is useful too.
So is never touching the knee elevation handle...in fact TAKE IT OFF!
Being able to bore a smooth round hole that's undersized helps you too.
Gauge pins in tenths increments are your friends.
So what kit do you actually have to do all these things with?
Can you grind a cutter?
Can you grind a 0.9mm mm 3 flute carbide cutter accurately?
What about a 0.9mm HSS cutter?
What resources you have will determine what you can do (of course
)!
So show us your shop in all it's glorious detail...even if we can't actually help you, we're always curious (at least I am!)
Cheers
Marcus
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Vancouver Wire EDM -- Wire EDM Machining