Many genes have more than two possible alleles (such as in human blood groups;for the ABO gene, the three alleles are the IA, IB and i alleles.), but remember; the individual still only has two alleles (one from mom, one from dad)
Since diploid organisms have two copies of each chromosome, they have two of each gene. Since genes come in more than one version, an organism can have two of the same alleles of a gene, or two different alleles. This is important because alleles can be dominant, recessive, or codominant to each other.