Tax "breaks" as you refer to them (also known as tax expenditures) are equivalent to a subsidy. If the U.S. government sends you $10,000, or they craft a special tax credit that only benefits you, reducing the taxes you pay by $10,000, the net effect is the same. Either way, they could have charged everyone a little less in taxes by not sending you that money/arbitrarily letting you pay less taxes than everyone else.
On page 7 alone, there are tax breaks so targeted that they clearly exist only to send money to oil and coal companies, e.g.
Credit for Production of Nonconventional Fuels ($14,097) - IRC Section 45K. This provision provides a tax credit for the production of certain fuels. Qualifying fuels include: oil from shale, tar sands; gas from geopressurized brine, Devonian shale, coal seams, tight formations, biomass, and coal-based synthetic fuels. This credit has historically primarily benefited coal producers.
BTW, the dollar figures are in millions, so that one credit, by itself, is a $14 billion giveaway to people who are producing the dirtiest fuels possible; aside from biomass and fracking for natural gas (the latter being arguable), every other entry listed there is far worse for the environment than the energy sources we used even a decade ago. And we gave them $14 billion dollars to encourage this behavior.