You could disconnect the slave cyl from the clutch fork and see how far the pushrod moves as you push the clutch pedal down. You need to figure out how much slave pushrod travel you need to disengage the clutch. If the slave pushrod moves a lot farther than needed, then get a larger dia. slave or a smaller dia master cyl. That way you will get less slave travel for for every inch of clutch pedal travel reducing the force required. The pedal will have to travel farther to do its duty. I guess a simpler question would be, does the clutch engage and disengage in a small amount of pedal movement?
It sounds like the original setup was a custom arrangement, it worked ok for you and nothing has been changed but the two cylinders. If that is true, then disregard everything I wrote. Most people do anyhow (lol). Look for a pinched or obstructed line or a defective cylinder. I'd still try the first step above and see if the hydraulic system works smoothly without actuating the clutch. Usually, pedals have about a 1 to 7 ratio., so if you have a real short pedal arm, extra effort would be expected.