Yeah, the EU has frankly turned the whole situation completely ridiculous. Essentially they are asking you to believe that say, one Delta Force soldier could take on all the soldiers of the entire earth... and win. I don't care how incompetent the soldiers of the entire earth are... that's just unbelievable!
To make sense of the scenes I just ignore the EU stuff, and assume there are a lot more clones already out there than implied by the movie and with lots of support troops as well (but you need lots of clones, you can't call it the Clone War if only 1% of your troops are clones, can you?).