I could easily see this actually decreasing inequality. There is already a very significant genetic factor to aptitude in most areas. It's a major source of inequality, not necessarily between groups/races, but definitely between individuals. If genetic enhancement is widely available and superior to most levels of natural genetic advantage, then I think genetic enhancement might bring us up to a higher, more equal, playing field.
Of course, there's the possibility that genetic enhancement will be very expensive, and so lock poor people out of it. There are a number of possible solutions to this issue, but the most obvious seems to me to perform arbitrage between a family's current state of poverty and the future wealth their child will gain by virtue of their enhancements.
From the public sector, this would look like a tax on the population to pay for poor families to get genetic enhancement. The government would then regain the money they spent through the increased taxes that the genetically enhanced person would pay as a result of their increased income.
From the private sector, this would look like a corporation that would pay for a poor family's children to get genetic enhancements in exchange for, say, 2.5% of the child's lifetime earnings. Assuming genetic enhancement will improve your lifetime earnings by more than 2.5% (which you kind of have to in order to believe enhancement has the power to impact inequality in a major way), this is beneficial to the child. If we assume yearly earnings of $28,000 (from Wikipedia's Personal Income in the United States) and working for 40 years, this gives us $1,120,000 of lifetime income, which is enough to fund a $20,000 procedure and still have a corporate profit margin of $8000 per person.
Ultimately, the only way genetic enhancement has the possibility to influence income inequality levels is if it can increase the lifetime earnings potential of the people who receive it. Once you grant that premise, you create an investment opportunity where people with money now can get more money in the future by paying for other people to get enhanced, in exchange for a small amount of the enhanced person's future earnings. I doesn't matter if the person with the money now is a corporation or the government. The investment opportunity still exists.
The only possible world in which this doesn't work is if the cost of the procedure is very close to the increase in income that enhancement grants. But even here, genetic enhancement doesn't change inequality much because the people who are enhanced would benefit almost as much from just having the money given to them, so it's not possible for rich people to become unassailable super-rich by genetic enhancement. They loose almost as much by paying for the procedure as they gain afterwards.
There are many possible issues with genetic enhancement, but I don't think inequality is one of them. (That is, unless the government outlaws the private sector method I described and also fails to implement a public solution. Then things could get bad...)