Ugh, yeah, 1,000 eggs is pretty high. Just take it as a testament to your perserverance - each egg hatched is one egg closer!
If it makes you feel any better, I've done about 12 MM hunts (successful), and only 4 have been under 1,000. My current one, Turtwig, is already over that as I started it originally in SoulSilver. So my sympathies are with you! Hope you get Porygon soon - it's a fabulous shiny!