Right ok.
This will be a long one but this has been haunting my mind for the past ten years and I have yet to find it.
I remember playing this in primary school, with the game looking like it was early 90's with pixel graphics.
I remember it being a puzzle game where you start off travelling to this island and meeting a doctor (no, it was not Dr. Brains island) where the first puzzle you get is to help him repair a soda/coffee machine, which you have to do by programming all the buttons to do the corresponding things until it works and you give the dude his nice beverage.
However, there is then a massive explosion and a brick falls on the dudes head. Poor guy. Turns out robots have attacked the island and you have to stop them and escape!
I don't remember any of the story from here on out til near the end, but I remember a lot of minigames and puzzles you had to beat.
The next one I remember was when you had to program a machine to drop slabs onto a bridge so that it was safe to cross. I also remember a point where you had to program this massive conveyor belt system to dump robots into acid and bring some barrels to safety.
There was also a point where you search for mines in a field using a robot top down, and one where you control a boat going down a river with the scientist and some others in it.
You crash into the coast of a jungle, and you use this radar scanning thing to search different co-ordinates in the jungle from above until you find a temple. The temple is this maze-like thing inside and you have to click in the direction you want to go in. Can't remember the end goal of this bit. The scanner also showed what wildlife was in the area so you had to find out where the temple was based on whether there were robots there or not (e.g. scanner shows 2 monkeys and a robot, next one to the left 3 monkeys, so its closer to the right)
You then find these three huts, where two have been booby trapped by dynamite and there is a random lady hiding in a crate in the third one, who pops out and helps you. She then makes you identify animals in a pitch black room using a torch. Dunno why.
Last minigame I remember comes at the very end, where everyone has been rescued and you are celebrating and ready to take off. THEN ROBOTS ATTACK AGAIN! SCARY!
They start lasering down the door, and you have to program this light the lady gave you to interfere with the signals the robots use, in order to stop them from getting in. Do this, and you win, and you get a cool splash screen with all the characters stood in a line together with it saying "CONGRATULATIONS!" above it.
Please, save me from this eternal hell of forgetting the name.