Please see the reply point wise below -
1. As per exemption Section 54 (amended) of Income Tax Act. capital gain exemption is possible in your case because as per the provisions of the act the new house must be purchased 1 year before the date of sale and 2 years after date of sale. which is fulfilling in your case.
2. As first option is feasible no need of 2nd option but you can however do that ... construction is permitted 3 years within sale of house.
3. Maximum tax exemption is limited to the 100% of capital gain on both of your houses sold less new house purchased and balance will be taxable.
4. So if you proceed to sale both of the new houses your expected approximate capital gain would be Net 41.25 Lakhs (Gain in 2003 house Sale of 42.85 lakhs & loss in 2009 house sale 1.6 lakhs) considering Indexation cost of acquisition and excluding improved cost of indexation.
So, as your new house purchase would be more than total net capital gain tax this option is the best and at last you will not incur any capital gain taxes.