Have you tested the newly repaired link outside of your production equipment? Possible the repaired splice is bad or cross spliced and you have physical layer issues. How do the counters look on both links? Any CRC errors?
Ashwini,
Can you tell me what Switch/router is acting as the gateway for 100.0.0.0/24 and 100.1.1.0/24 assuming they are /24?
What devices are routing and which are L2?
Can you show the output of "show iproute" on the routers running BGP.
This may not be the issue but something to check I only say this because I have seen this recently and it was the same very Odd behavior. LR Optics so your using single mode 1310nm... verify the fiber and patches are all Single mode(generally yell...