The super secret tip to doing this easily is the foil boat. C'mon, I'll show you.
I like Rold Gold pretzel rods as I find they tend to have the least amount of broken rods in each bag. Use whole rods, not broken ones as they look nicer.
Buy any color Wilton chocolate discs you like. They even come in flavors now like peppermint, if you dig that. Follow the directions on the melts! Never ever put them in the fridge or you may as well throw them in the garbage as they will not melt right afterward.
Make space in your fridge for 2 cookie sheets laid flat (on top of other things is fine as long as you can lay them flat).
Prep your kitchen with 2 baking sheets covered in foil, an open bag of pretzel rods, a paper towel for your hands and for drips, a butter knife, and some sprinkles (if you choose) poured into a little container. Baking is not like cooking; you have to be right on top of things. You can't answer the phone or wander off.
Make a little foil boat not quite as long as the chocolate-dipped area of your pretzel. This is the key to success!
Set your microwave to half-power and put it on for like 3 minutes. Stay right there. Pop in a ramekin of melts, about half the bag. After 30 seconds, stir well. Redo this every 20 seconds until they melt nicely.
Pour/scrape melted chocolate into your foil boat, concentrating on the opening, not the back. You're going to lay the pretzel in, but also drag it through, so better on this end than the other.
Dip and twist, dragging toward the open end of your boat. Coat well, no pretzel showing through. Set immediately on the foil covered cookie sheets you laid out. I put the naked-pretzel pieces out and alternate left-right. (This is something I learned AFTER taking the photos above, but is shown in the last photo.) This helps when you're moving them to a storage container and maximizes space.
Coat with sprinkles, if you like. If you're fancy, use an icing bag to heat more in an opposing color and zig-zag that color across - don't worry, this isn't a neat craft, messy is fine.
Microwave the rest of your melts, popping one finished sheet into the fridge. Dip the remaining pretzels. Put those in the fridge and you should be out of chocolate. You should have a few pretzels left over.
After 15-20 minutes, take the trays out of the fridge and move your pretzels to a large Tupperware. I lay them flat and they seem to not break or flake apart that way.
Pro tip: for Halloween, use brown chocolate and chocolate sprinkles (jimmies) and add a slivered almond to the end for Werewolf Fingers.
Did you try it? Show me! :)
These are the ones I brought to a Holiday Party in 2012 - Christmas and Hanukkah colors.
These are the ones we left at home that were made from the leftover colors swirled together.
These are the "icicles" I invented in 2013.
Did you try it? Show me! :)