So basically part of 2x9 (i think it was 9), but some dialogue is not exact, etc. I didn't have time to watch the scene and I couldn't find the quotes on their own.
Once the Count found her QC security badge, she knew she was in trouble. He held her at gun point, until they reached the top floor and were sitting in Oliver's office. She wasn't sure when he'd figured it out- but he knew. He knew that Oliver Queen was the Arrow, and now, while she was tied to an office chair, he was calling him from her phone. He didn't even bother to move when he made the call, but she had no idea what he said. He kept touching her hair or her neck and she'd lost the ability to focus on anything else.
It was less than 10 minutes later that the Arrow put in an appearance. Felicity couldn't do anything besides worrying while the Count shot at Oliver. It took Felicity by surprise when she was pulled out of her chair and away from where Oliver was still standing. She breathed a sigh of relief that Oliver wasn't dead or something, but it wasn't over yet.
She could see the fear in Oliver's eyes as she was pulled further away from him. She remembered yelling at Oliver, telling him not to kill; that she wasn't worth breaking his promise. She couldn't remember exactly what was said between the two men after that, but she could certainly remember when Oliver started to lower his bow. She could feel the impending descent of needles and she knew what it'd mean. She could see Oliver watching carefully as the Count continued threatening. The next thing she knew there was a loud crash behind her and she was on the ground. It was Oliver's voice that brought her back to the present- just as he was doing now.
She'd been lost in a bit of a drug haze and it took a minute for her brain to remember that she was safe in the lair. Oliver had come by to double check on her before he got ready to leave. She told him she was fine, but it wasn't until he started to walk away that she came after him.
"Oliver." He stopped and turned. "I just wanted to say I'm sorry." Oliver's brow furrowed in confusion.
"For what?"
"I got myself in trouble and you had to rescue me. You killed again and I'm sorry that I was the one that put you in a position where you had to make that kind of choice." Oliver grabbed her hand.
"Felicity. He had you and he was going to hurt you. There was NO choice to make." She gave him a small smile and he turned to leave. She was left alone in the lair, but she didn't bother going home yet. She wasn't ready to face anything yet, so instead she lost herself in one of her coding projects.