I have water blisters appearing on my knuckles on my right hand. This has been going on for the last couple of months.

Some viruses can cause water blisters. Chicken pox and shingles, for example, begin with the formation of small blisters that burst after a day or so, and then begin to crust over and scab. Scabs should be watched for any signs of pus as these may indicate infection.

Allergies to substances resulting in contact dermatitis may also cause water blisters. Some people have significant allergies to detergents or cleaning chemicals that can at first show up as blisters. Blisters and/or rash may be present and should be evaluated by a doctor to rule out a viral cause. Poison oak and ivy can also cause water blisters.

Prickly heat, resulting from exposure to high heat in humid areas may also create water blisters. Blisters usually tend to resolve overnight, leaving behind a raised and irritated rash. As well, direct exposure to the sun, and extremely bad sunburns may blister the skin like contact burns. If the skin forms waters blisters with minimal sun exposure, this may indicate heightened skin sensitivity to the sun.

There are other conditions, I would recommend that you be evaluated by a doctor for a correct diagnosis.

Men's health problems and awareness video...
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I have this exact same problem a few times per year, I can almost guarantee it's not herpes unless you're in a high risk group, I found this link very informative and should ease your mind, you're not alone.

http://www.internationaleczema-psoriasisfoundation.org/dyshidrotic_eczema.php4