I haven't tried these myself but always have good luck with this site and high rated recipes.
http://allrecipes.com/recipe/chocolate-covered-cherry-cookies-ii/Detail.aspx
http://allrecipes.com/recipe/chocolate-covered-cherry-cookies/detail.aspx
I've never had cookies like this, I might have to add them to my holiday baking list 
This is a recipe I got years ago from Gail's Recipe Swap.
You can either use the cherries with the stems sticking out the top, or just use the ones without stems.
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Chocolate-Covered Cherry Cookies Makes 48.
10 oz. jar small maraschino cherries with stems (about 48 )
2 T. cherry brandy or cherry juice
1/2 c. butter
1 c. sugar
1/2 c. unsweetened cocoa powder
1/4 tsp. baking soda
1/4 tsp. baking powder
1 egg
1 1/2 c. flour
Chocolate-Cherry frosting (recipe follows)
Drain cherries; reserve juice if desired. Lightly toss cherries with brandy or reserved juice in a small bowl. Let stand for 30 minutes, stirring once or twice. Drain well, reserving liquid.
Beat butter in large mixing bowl with electric mixer on medium to high speed for 30 seconds. Add sugar, cocoa, baking soda and powder; beat until combined well. Beat in egg and 1 tsp. of reserved liquid. Beat in as much flour as possible with the mixer; stir in remaining flour with wooden spoon.
Shape a scant 1 tsp. of dough around each cherry. Place each ball in a 1" foil or paper baking cup. Place cups 1" apart on ungreased baking sheet. Bake at 350F., 10-12 minutes, or until tops look dry. Transfer cookies to wire racks. Frost each warm cookie with 1/2 tsp. frosting; cool completely.
Chocolate-Cherry Frosting
Stir together 1/2 c. semisweet chocolate chips and 1/3 c. sweetened condensed milk in a small, heavy saucepan. Cook over low heat just until chocolate is melted, stirring occasionally. Stir in 1-2 T. of reserved cherry liquid to make spreading consistency. Makes about 1/2 c.
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