If you are talking about "दोन" (don) appearing twice within the pink rectangular box, that's Konkani and Marathi, not Hindi. Two is indeed written as "दोन" (don) in Konkani and Marathi.
"Two thousand rupees" (in English) = "दोन हजार रुपया" (in Konkani) = "दोन हजार रुपये" (in Marathi).
This is nothing new about the new 2000 INR notes. This is true for the older 5 INR, 10 INR, 20 INR, 50 INR, 100 INR, 500 INR and 1000 INR notes as well. The language panel shows only 15 of the 22 official languages of India, in alphabetical order. The 6th language in the language panel is Konkani and the 8th one is Marathi.
I have also explained in my previous comment that the denomination is also written in Hindi. Why do you think it is not written in Hindi even once? In fact, the denomination is written in Hindi on the reverse side of every note, outside the language panel, either at the bottom left corner or at the left edge. In fact, in the new 2000 INR notes, "दो हज़ार रुपये" is written in Hindi at the left edge of the reverse side of the note.
Here's an example of hazaar with the spelling I mean: https://lh3.ggpht.com/FXu7LY_Ki5uDcYTcOWwMSxAL0lC9ttGLbNZrrT...