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A huge loss in cloning is the decrease in biodiversity. In most cases, a specific trait is desired to be cloned. If all species were to be cloned, there would be no genetic variation. Everything would be the exact same, with no uniqueness. Cloning would also possibly rid of good traits. For example if a herd of cattle is genetically modified for a specific trait, the herd might lose other useful traits, so if there is an outbreak of a disease, all of them would be vulnerable. In human instances, there would be a decrease in the uniqueness we currently have in the world. People will start cloning themselves, resulting is less diversity.

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Cloning any species is very inefficient and has a very high failure rate. The success rate ranges from 0.1% to 3%. This means, for example, that every 1000 tries, only 1 to 30 clones are produced. Even if the clones were even produced, the chances of them living healthy are still very slim. The failure rate is high for many reasons; the enucleated egg and the transferred nucleus may not be compatible, an egg with a newly transferred nucleus may not begin to divide or develop properly, the implantation of the embryo into the surrogate mother might fail, and the pregnancy itself as well.

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Among the species cloned as far such as, sheep, pigs, goats, mice, and cattle, scientists have observed many defects. The defects were found in the cardiovascular system, kidneys, liver, and brain. Clones also experienced lung failure at birth, diabetes, leg malformation, and joint abnormalities. Cloned animals that survive also tend to have "Large Offspring Syndrome", or LOS. Clones with LOS usually have abnormally large organs. This can lead to many problems involving breathing and blood flow.

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After being cloned, the organism can possibly have a different stimulation of gene expression. They may have the same genes as the original, but can have the chance of being regulated at different times, resulting in different physical traits.

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Some clones can become not as healthy as the original. For example, Dolly the sheep, a clone, died early at the age of six.

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Cloning does not exactly make animals or humans identical. In fact, they can develop a different behavior based on environment. A good and domesticated dog does not always turn out to act the same.

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Cloning is a process of stimulating an identical copy of an organism. Although, this seems fascinating, there are many risks. Therefore, cloning should not be practiced.