The pop test can only tell you which terminals on a woofer or tweeter are positive and negative. Your problem is you don't know which wire coming from the crossover is positive and negative. A simple pop test won't help with that. You will have to hear from Yamaha about that.
The pop test involves a 1.5 volt AA battery and two short pieces of wire. Hold or tape the wires so one goes from the + end of the battery to one terminal on a driver (woofer or tweeter). Similarly attach the minus end of the battery to the other terminal. If you have the + end of the battery attached to the + terminal of the driver, the cone will pop forward when you make final attachment. If the driver cone pops backward, the battery + terminal is attached to the driver minus terminal. With 1.5 volts you won't harm the drivers.
It may be possible to guess which wires are plus and which are minus and test it with an AA battery. Make your best guess attachments for the woofer and tweeter, and attach the battery at the terminals at the back of the speaker cabinet. If both the woofer and tweeter pop forward, you've guessed correctly. With some trial and error you should be able to figure it out by this method. Even with a 3-way speaker you should be able to get it by trial and error.
Are the crossovers visible, and can you post a photo of them?
The positive terminal on woofers and tweeters are usually marked with a plus (+) mark, or with a colored (often red) dot. Sometimes the plus mark is embossed in the plastic. Look closely with a flashlight.