One the one hand, the scales aren't really intended to be removed, we build a finished knife. But on the other hand they can be removed and plenty of people people do it.
Our tolerance on the pins and the holes are tight. The stackup allows for up to half a thou interference which means some pins get tapped in.
Neither Jo not I have ever run into a problem pulling pins, and we've both done plenty, but you need a good set up and technique.
A nail like that might push into the hole and spread the pin making it tighter in the hole. You need a smaller pin that fits the minor diameter of the pin to sit against the red lock tight pin (sig side) to drift it out against a fastener. You shouldn't be pressing on the pin or using a nail for this.
I'm sorry you're having trouble but you might not be using the right tool and technique for the job. We're always happy to help someone out who needs help for the cost of return shipping, but changing the design to make the pins easier to get in and out goes against their primary function which is to hold the scales tightly and accurately in place.
Many knives the pins are peened or swedged and not replaceable at all. Ours are not always easy to get in and out. I'm sorry but they're not intended to be. It can be done, but ideally not with a nail.