If I remember right the second eos only has to do with high score initials. However, the upper flipper IS daisychained to the lower flipper to get it's power. Easy test, set your meter to DC volts and check for voltage at the flipper coil.

Get the manual here:
http://mirror2.ipdb.org/files/2396/Bally_1986_Strange_Science_English_Operating_Manual.pdf

Go to page 53. There is a switch between the right flipper and upper right flipper. The switch is open. When the lower flipper is energized the interconnect switch should close and energize the upper right flipper.
The switch may be a dual EOS switch on the lower right flipper. Not sure, a pic would help.

So I'd check the lower right flipper coil and see if the EOS switch has dual contacts. One would be open and the other closed.

Missed this when I first read the thread.
Yes 2 EOS switches is correct and yes one is NO at rest and connects to the upper Right flipper coil.

Check for continuity from the terminal of the 2nd EOS switch to the upper right coil and the other terminal to the lower right coil.
Then manually activate the lower right flipper and see if the 2nd EOS switch provides continuity from the lower right coil to the upper right coil.

I was mistaken about the eos. Just flipped the PF and looked at mine. The second eos is teh daisy chain to the upper flipper. One os normally closed and the other normally open. The outer eos is normally open and should close when the lower flipper is all the way up. This allows current to get to the upper flipper. I believe Bally did this to avoid having the upper flipper on full power when a ball wasn't even up there so it got full power only after the lower flipper completed its stroke. Make sure that outer eos closes nice and tight when the lower flipper hits the end of stroke.

Parts drawing here for lower right flipper:

http://mirror2.ipdb.org/files/2396/Bally_1986_Strange_Science_English_Operating_Manual.pdf

page 26

I would have a hard time playing that game with Cliffy staring at me the whole time

My first thought as well

Bwahahaha!!!

Now get those damned brass sleeves OUTTA there!

i absolutely love this game. i had a line on one a year or so ago in near perfect condition for 800 but the seller flaked on me. i wish i could find another one near me.